diff --git a/data/modules/riker/alignment/HG00240.alignment-metrics.txt b/data/modules/riker/alignment/HG00240.alignment-metrics.txt new file mode 100644 index 00000000..b61a2d25 --- /dev/null +++ b/data/modules/riker/alignment/HG00240.alignment-metrics.txt @@ -0,0 +1,4 @@ +sample category total_reads aligned_reads frac_aligned hq_aligned_reads hq_aligned_bases hq_aligned_q20_bases hq_median_mismatches mismatch_rate hq_mismatch_rate indel_rate mean_read_length sd_read_length median_read_length mad_read_length min_read_length max_read_length mean_aligned_read_length aligned_reads_in_pairs frac_aligned_in_pairs reads_improperly_paired frac_reads_improperly_paired bad_cycles strand_balance frac_chimeras frac_softclipped_reads frac_hardclipped_reads mean_3prime_softclipped_bases +HG00240 read1 49290193 49272959 0.99965 45932523 4543946625 4266911175 0.00 0.004599 0.004363 0.000106 100.00 0.00 100.00 0.00 100 100 98.82 49091197 0.99631 1213329 0.02462 0 0.50414 0.01790 0.01184 0.00000 21.59 +HG00240 read2 49290193 49096151 0.99606 45744255 4501617843 4174244580 0.00 0.006610 0.006364 0.000109 100.00 0.00 100.00 0.00 100 100 98.25 49091194 0.99990 1213326 0.02471 0 0.49571 0.01796 0.01744 0.00000 21.78 +HG00240 pair 98580386 98369110 0.99786 91676778 9045564468 8441155755 0.00 0.005600 0.005359 0.000107 100.00 0.00 100.00 0.00 100 100 98.53 98182391 0.99810 2426655 0.02467 0 0.49993 0.01793 0.01464 0.00000 21.70 diff --git a/data/modules/riker/alignment/HG03953.alignment-metrics.txt b/data/modules/riker/alignment/HG03953.alignment-metrics.txt new file mode 100644 index 00000000..fd051e9c --- /dev/null +++ b/data/modules/riker/alignment/HG03953.alignment-metrics.txt @@ -0,0 +1,4 @@ +sample category total_reads aligned_reads frac_aligned hq_aligned_reads hq_aligned_bases hq_aligned_q20_bases hq_median_mismatches mismatch_rate hq_mismatch_rate indel_rate mean_read_length sd_read_length median_read_length mad_read_length min_read_length max_read_length mean_aligned_read_length aligned_reads_in_pairs frac_aligned_in_pairs reads_improperly_paired frac_reads_improperly_paired bad_cycles strand_balance frac_chimeras frac_softclipped_reads frac_hardclipped_reads mean_3prime_softclipped_bases +HG03953 read1 25439946 25432219 0.99970 23891276 3564333695 3501056033 0.00 0.004673 0.003977 0.000235 150.00 0.00 150.00 0.00 150 150 148.70 25366838 0.99743 632030 0.02485 0 0.50057 0.00694 0.00867 0.00000 39.34 +HG03953 read2 25439946 25370547 0.99727 23659859 3522438310 3456502740 0.00 0.004889 0.004102 0.000243 150.00 0.00 150.00 0.00 150 150 147.83 25366838 0.99985 632030 0.02491 0 0.50081 0.00735 0.01441 0.00000 44.38 +HG03953 pair 50879892 50802766 0.99848 47551135 7086772005 6957558773 0.00 0.004780 0.004039 0.000239 150.00 0.00 150.00 0.00 150 150 148.27 50733676 0.99864 1264060 0.02488 0 0.50069 0.00714 0.01154 0.00000 42.26 diff --git a/data/modules/riker/basic/HG00240.base-distribution-by-cycle.txt b/data/modules/riker/basic/HG00240.base-distribution-by-cycle.txt new file mode 100644 index 00000000..dd2c9e82 --- /dev/null +++ b/data/modules/riker/basic/HG00240.base-distribution-by-cycle.txt @@ -0,0 +1,201 @@ +sample read_end cycle frac_a frac_c frac_g frac_t frac_n +HG00240 1 1 0.28942 0.20943 0.20676 0.29184 0.00255 +HG00240 1 2 0.28603 0.21469 0.21071 0.28856 0.00001 +HG00240 1 3 0.27908 0.22161 0.21724 0.28207 0.00001 +HG00240 1 4 0.27963 0.22114 0.21697 0.28226 0.00000 +HG00240 1 5 0.28747 0.21336 0.20914 0.29003 0.00000 +HG00240 1 6 0.28123 0.21971 0.21554 0.28352 0.00000 +HG00240 1 7 0.27907 0.22193 0.21783 0.28117 0.00000 +HG00240 1 8 0.28494 0.21586 0.21183 0.28738 0.00000 +HG00240 1 9 0.28308 0.21768 0.21359 0.28565 0.00000 +HG00240 1 10 0.28043 0.22036 0.21610 0.28312 0.00000 +HG00240 1 11 0.28172 0.21908 0.21480 0.28440 0.00000 +HG00240 1 12 0.28060 0.22020 0.21583 0.28336 0.00000 +HG00240 1 13 0.28170 0.21913 0.21463 0.28453 0.00000 +HG00240 1 14 0.28088 0.22014 0.21549 0.28348 0.00000 +HG00240 1 15 0.27973 0.22129 0.21651 0.28226 0.00021 +HG00240 1 16 0.27960 0.22154 0.21682 0.28203 0.00001 +HG00240 1 17 0.27780 0.22155 0.21685 0.28052 0.00328 +HG00240 1 18 0.27773 0.22327 0.21844 0.28056 0.00000 +HG00240 1 19 0.27768 0.22341 0.21849 0.28042 0.00000 +HG00240 1 20 0.27778 0.22352 0.21834 0.28036 0.00000 +HG00240 1 21 0.27704 0.22424 0.21899 0.27973 0.00000 +HG00240 1 22 0.27685 0.22416 0.21898 0.28001 0.00000 +HG00240 1 23 0.27700 0.22403 0.21880 0.28017 0.00000 +HG00240 1 24 0.27594 0.22520 0.21981 0.27903 0.00001 +HG00240 1 25 0.27612 0.22492 0.21959 0.27935 0.00001 +HG00240 1 26 0.27612 0.22497 0.21947 0.27936 0.00008 +HG00240 1 27 0.27527 0.22576 0.22039 0.27849 0.00009 +HG00240 1 28 0.27515 0.22579 0.22026 0.27869 0.00011 +HG00240 1 29 0.27519 0.22591 0.22026 0.27850 0.00014 +HG00240 1 30 0.27446 0.22665 0.22082 0.27800 0.00007 +HG00240 1 31 0.27430 0.22663 0.22118 0.27784 0.00006 +HG00240 1 32 0.27434 0.22671 0.22095 0.27795 0.00005 +HG00240 1 33 0.27360 0.22746 0.22159 0.27728 0.00006 +HG00240 1 34 0.27363 0.22734 0.22143 0.27752 0.00008 +HG00240 1 35 0.27343 0.22743 0.22155 0.27750 0.00009 +HG00240 1 36 0.27300 0.22789 0.22209 0.27694 0.00008 +HG00240 1 37 0.27321 0.22780 0.22169 0.27728 0.00001 +HG00240 1 38 0.27313 0.22790 0.22165 0.27727 0.00005 +HG00240 1 39 0.27249 0.22835 0.22219 0.27692 0.00006 +HG00240 1 40 0.27269 0.22828 0.22200 0.27698 0.00005 +HG00240 1 41 0.27255 0.22836 0.22197 0.27704 0.00008 +HG00240 1 42 0.27195 0.22894 0.22254 0.27649 0.00008 +HG00240 1 43 0.27224 0.22878 0.22232 0.27658 0.00008 +HG00240 1 44 0.27224 0.22871 0.22221 0.27676 0.00008 +HG00240 1 45 0.27153 0.22927 0.22286 0.27615 0.00018 +HG00240 1 46 0.27159 0.22935 0.22266 0.27616 0.00023 +HG00240 1 47 0.27140 0.22951 0.22286 0.27602 0.00022 +HG00240 1 48 0.27113 0.22985 0.22306 0.27577 0.00020 +HG00240 1 49 0.27090 0.23001 0.22318 0.27563 0.00027 +HG00240 1 50 0.27129 0.22951 0.22302 0.27595 0.00023 +HG00240 1 51 0.27059 0.23025 0.22339 0.27553 0.00024 +HG00240 1 52 0.27062 0.23028 0.22341 0.27553 0.00016 +HG00240 1 53 0.27079 0.23013 0.22317 0.27580 0.00011 +HG00240 1 54 0.27021 0.23078 0.22359 0.27529 0.00013 +HG00240 1 55 0.27042 0.23051 0.22349 0.27544 0.00014 +HG00240 1 56 0.27035 0.23049 0.22350 0.27552 0.00014 +HG00240 1 57 0.26989 0.23103 0.22388 0.27505 0.00016 +HG00240 1 58 0.26989 0.23105 0.22378 0.27517 0.00012 +HG00240 1 59 0.26997 0.23101 0.22367 0.27518 0.00016 +HG00240 1 60 0.26924 0.23160 0.22442 0.27458 0.00017 +HG00240 1 61 0.26943 0.23137 0.22426 0.27475 0.00019 +HG00240 1 62 0.26956 0.23142 0.22404 0.27480 0.00018 +HG00240 1 63 0.26893 0.23201 0.22466 0.27418 0.00022 +HG00240 1 64 0.26923 0.23176 0.22439 0.27436 0.00027 +HG00240 1 65 0.26894 0.23188 0.22439 0.27439 0.00040 +HG00240 1 66 0.26851 0.23226 0.22487 0.27388 0.00048 +HG00240 1 67 0.26849 0.23240 0.22497 0.27362 0.00053 +HG00240 1 68 0.26851 0.23237 0.22484 0.27368 0.00059 +HG00240 1 69 0.26810 0.23258 0.22520 0.27350 0.00062 +HG00240 1 70 0.26796 0.23280 0.22521 0.27340 0.00063 +HG00240 1 71 0.26796 0.23278 0.22530 0.27347 0.00049 +HG00240 1 72 0.26728 0.23359 0.22578 0.27288 0.00047 +HG00240 1 73 0.26775 0.23324 0.22542 0.27315 0.00044 +HG00240 1 74 0.26765 0.23342 0.22559 0.27302 0.00033 +HG00240 1 75 0.26703 0.23409 0.22603 0.27265 0.00020 +HG00240 1 76 0.26694 0.23398 0.22609 0.27277 0.00023 +HG00240 1 77 0.26713 0.23377 0.22614 0.27265 0.00031 +HG00240 1 78 0.26657 0.23443 0.22653 0.27214 0.00033 +HG00240 1 79 0.26648 0.23464 0.22639 0.27217 0.00033 +HG00240 1 80 0.26656 0.23459 0.22645 0.27211 0.00029 +HG00240 1 81 0.26591 0.23520 0.22711 0.27155 0.00023 +HG00240 1 82 0.26595 0.23509 0.22696 0.27171 0.00029 +HG00240 1 83 0.26603 0.23511 0.22693 0.27164 0.00028 +HG00240 1 84 0.26522 0.23597 0.22765 0.27091 0.00026 +HG00240 1 85 0.26519 0.23592 0.22772 0.27080 0.00037 +HG00240 1 86 0.26503 0.23591 0.22778 0.27081 0.00046 +HG00240 1 87 0.26450 0.23637 0.22820 0.27032 0.00062 +HG00240 1 88 0.26444 0.23651 0.22828 0.27013 0.00064 +HG00240 1 89 0.26451 0.23664 0.22827 0.26999 0.00059 +HG00240 1 90 0.26376 0.23727 0.22884 0.26952 0.00061 +HG00240 1 91 0.26371 0.23746 0.22888 0.26933 0.00062 +HG00240 1 92 0.26357 0.23746 0.22906 0.26918 0.00073 +HG00240 1 93 0.26304 0.23823 0.22933 0.26876 0.00065 +HG00240 1 94 0.26282 0.23847 0.22964 0.26851 0.00055 +HG00240 1 95 0.26263 0.23864 0.22988 0.26842 0.00044 +HG00240 1 96 0.26214 0.23901 0.23034 0.26804 0.00048 +HG00240 1 97 0.26194 0.23940 0.23050 0.26768 0.00047 +HG00240 1 98 0.26187 0.23951 0.23060 0.26759 0.00044 +HG00240 1 99 0.26122 0.24031 0.23128 0.26679 0.00040 +HG00240 1 100 0.26112 0.24022 0.23129 0.26689 0.00048 +HG00240 2 1 0.29624 0.20134 0.20137 0.30061 0.00045 +HG00240 2 2 0.28477 0.21539 0.20992 0.28789 0.00203 +HG00240 2 3 0.27668 0.22268 0.21837 0.28011 0.00216 +HG00240 2 4 0.27777 0.22108 0.21791 0.28102 0.00223 +HG00240 2 5 0.28629 0.21283 0.20942 0.28907 0.00239 +HG00240 2 6 0.27911 0.22011 0.21669 0.28149 0.00260 +HG00240 2 7 0.27806 0.22208 0.21838 0.27996 0.00151 +HG00240 2 8 0.28494 0.21531 0.21188 0.28685 0.00102 +HG00240 2 9 0.28282 0.21746 0.21400 0.28476 0.00097 +HG00240 2 10 0.28078 0.21992 0.21607 0.28289 0.00034 +HG00240 2 11 0.28190 0.21901 0.21487 0.28394 0.00027 +HG00240 2 12 0.28098 0.22009 0.21584 0.28288 0.00021 +HG00240 2 13 0.28210 0.21869 0.21441 0.28461 0.00020 +HG00240 2 14 0.28095 0.22001 0.21545 0.28336 0.00022 +HG00240 2 15 0.28001 0.22101 0.21650 0.28228 0.00020 +HG00240 2 16 0.27977 0.22124 0.21675 0.28202 0.00021 +HG00240 2 17 0.27902 0.22197 0.21739 0.28144 0.00018 +HG00240 2 18 0.27789 0.22310 0.21852 0.28034 0.00015 +HG00240 2 19 0.27795 0.22308 0.21833 0.28038 0.00026 +HG00240 2 20 0.27764 0.22340 0.21836 0.27991 0.00069 +HG00240 2 21 0.27669 0.22388 0.21886 0.27951 0.00105 +HG00240 2 22 0.27668 0.22374 0.21872 0.27941 0.00145 +HG00240 2 23 0.27642 0.22373 0.21864 0.27945 0.00176 +HG00240 2 24 0.27534 0.22506 0.21979 0.27836 0.00145 +HG00240 2 25 0.27570 0.22445 0.21940 0.27905 0.00139 +HG00240 2 26 0.27527 0.22501 0.21972 0.27857 0.00143 +HG00240 2 27 0.27465 0.22590 0.22049 0.27809 0.00087 +HG00240 2 28 0.27469 0.22542 0.22030 0.27788 0.00170 +HG00240 2 29 0.27461 0.22569 0.22011 0.27801 0.00159 +HG00240 2 30 0.27365 0.22649 0.22111 0.27727 0.00148 +HG00240 2 31 0.27375 0.22663 0.22117 0.27712 0.00132 +HG00240 2 32 0.27352 0.22696 0.22126 0.27701 0.00125 +HG00240 2 33 0.27318 0.22786 0.22199 0.27674 0.00023 +HG00240 2 34 0.27327 0.22753 0.22150 0.27716 0.00053 +HG00240 2 35 0.27208 0.22699 0.22112 0.27603 0.00378 +HG00240 2 36 0.27252 0.22843 0.22252 0.27643 0.00011 +HG00240 2 37 0.27303 0.22797 0.22191 0.27697 0.00011 +HG00240 2 38 0.27273 0.22828 0.22201 0.27679 0.00019 +HG00240 2 39 0.27224 0.22877 0.22264 0.27620 0.00015 +HG00240 2 40 0.27240 0.22848 0.22222 0.27672 0.00018 +HG00240 2 41 0.27220 0.22867 0.22223 0.27659 0.00031 +HG00240 2 42 0.27157 0.22921 0.22308 0.27581 0.00033 +HG00240 2 43 0.27154 0.22878 0.22250 0.27600 0.00118 +HG00240 2 44 0.27138 0.22892 0.22239 0.27584 0.00147 +HG00240 2 45 0.27069 0.22959 0.22295 0.27516 0.00161 +HG00240 2 46 0.27085 0.22933 0.22305 0.27551 0.00125 +HG00240 2 47 0.27051 0.22939 0.22254 0.27517 0.00239 +HG00240 2 48 0.26998 0.22992 0.22333 0.27470 0.00207 +HG00240 2 49 0.27018 0.22987 0.22320 0.27503 0.00171 +HG00240 2 50 0.27039 0.22975 0.22304 0.27486 0.00196 +HG00240 2 51 0.26998 0.23058 0.22389 0.27485 0.00070 +HG00240 2 52 0.26990 0.23050 0.22373 0.27466 0.00120 +HG00240 2 53 0.26993 0.23016 0.22349 0.27478 0.00163 +HG00240 2 54 0.26961 0.23124 0.22415 0.27448 0.00051 +HG00240 2 55 0.26987 0.23083 0.22390 0.27475 0.00065 +HG00240 2 56 0.26966 0.23125 0.22419 0.27463 0.00028 +HG00240 2 57 0.26926 0.23155 0.22455 0.27445 0.00020 +HG00240 2 58 0.26926 0.23127 0.22440 0.27435 0.00072 +HG00240 2 59 0.26926 0.23169 0.22451 0.27432 0.00021 +HG00240 2 60 0.26863 0.23231 0.22512 0.27377 0.00016 +HG00240 2 61 0.26881 0.23197 0.22482 0.27388 0.00051 +HG00240 2 62 0.26860 0.23228 0.22484 0.27384 0.00043 +HG00240 2 63 0.26770 0.23254 0.22529 0.27303 0.00144 +HG00240 2 64 0.26825 0.23211 0.22488 0.27340 0.00135 +HG00240 2 65 0.26820 0.23290 0.22529 0.27323 0.00039 +HG00240 2 66 0.26767 0.23317 0.22572 0.27309 0.00035 +HG00240 2 67 0.26773 0.23317 0.22587 0.27286 0.00037 +HG00240 2 68 0.26734 0.23312 0.22578 0.27265 0.00111 +HG00240 2 69 0.26683 0.23371 0.22602 0.27229 0.00115 +HG00240 2 70 0.26687 0.23359 0.22617 0.27226 0.00112 +HG00240 2 71 0.26670 0.23368 0.22620 0.27203 0.00139 +HG00240 2 72 0.26607 0.23456 0.22687 0.27140 0.00110 +HG00240 2 73 0.26647 0.23401 0.22653 0.27195 0.00105 +HG00240 2 74 0.26628 0.23440 0.22680 0.27154 0.00098 +HG00240 2 75 0.26556 0.23504 0.22733 0.27101 0.00106 +HG00240 2 76 0.26569 0.23497 0.22707 0.27122 0.00105 +HG00240 2 77 0.26556 0.23496 0.22723 0.27104 0.00120 +HG00240 2 78 0.26503 0.23559 0.22785 0.27049 0.00104 +HG00240 2 79 0.26504 0.23570 0.22783 0.27055 0.00088 +HG00240 2 80 0.26475 0.23596 0.22799 0.27027 0.00104 +HG00240 2 81 0.26431 0.23641 0.22855 0.26984 0.00088 +HG00240 2 82 0.26424 0.23633 0.22843 0.26981 0.00119 +HG00240 2 83 0.26390 0.23681 0.22874 0.26955 0.00099 +HG00240 2 84 0.26324 0.23762 0.22949 0.26885 0.00080 +HG00240 2 85 0.26360 0.23744 0.22945 0.26900 0.00051 +HG00240 2 86 0.26339 0.23764 0.22949 0.26874 0.00075 +HG00240 2 87 0.26259 0.23839 0.23013 0.26817 0.00073 +HG00240 2 88 0.26249 0.23835 0.23000 0.26801 0.00115 +HG00240 2 89 0.26204 0.23867 0.23033 0.26767 0.00129 +HG00240 2 90 0.26146 0.23931 0.23082 0.26716 0.00124 +HG00240 2 91 0.26140 0.23939 0.23094 0.26703 0.00124 +HG00240 2 92 0.26111 0.23966 0.23121 0.26677 0.00125 +HG00240 2 93 0.25925 0.23950 0.23084 0.26495 0.00546 +HG00240 2 94 0.26021 0.24073 0.23208 0.26574 0.00124 +HG00240 2 95 0.25990 0.24098 0.23238 0.26561 0.00113 +HG00240 2 96 0.25929 0.24177 0.23303 0.26492 0.00099 +HG00240 2 97 0.25930 0.24167 0.23303 0.26482 0.00117 +HG00240 2 98 0.25893 0.24226 0.23325 0.26449 0.00107 +HG00240 2 99 0.25802 0.24299 0.23399 0.26373 0.00126 +HG00240 2 100 0.25826 0.24286 0.23392 0.26385 0.00111 diff --git a/data/modules/riker/basic/HG00240.mean-quality-by-cycle.txt b/data/modules/riker/basic/HG00240.mean-quality-by-cycle.txt new file mode 100644 index 00000000..5599b8a7 --- /dev/null +++ b/data/modules/riker/basic/HG00240.mean-quality-by-cycle.txt @@ -0,0 +1,201 @@ +sample cycle mean_quality +HG00240 1 26.50 +HG00240 2 26.34 +HG00240 3 26.31 +HG00240 4 26.55 +HG00240 5 32.07 +HG00240 6 32.93 +HG00240 7 34.28 +HG00240 8 34.28 +HG00240 9 34.26 +HG00240 10 34.25 +HG00240 11 35.04 +HG00240 12 34.85 +HG00240 13 34.91 +HG00240 14 34.79 +HG00240 15 34.63 +HG00240 16 33.74 +HG00240 17 33.91 +HG00240 18 34.79 +HG00240 19 35.40 +HG00240 20 34.73 +HG00240 21 34.61 +HG00240 22 34.70 +HG00240 23 35.13 +HG00240 24 34.75 +HG00240 25 35.26 +HG00240 26 35.21 +HG00240 27 34.53 +HG00240 28 34.97 +HG00240 29 33.28 +HG00240 30 34.96 +HG00240 31 34.97 +HG00240 32 34.90 +HG00240 33 34.92 +HG00240 34 34.96 +HG00240 35 34.84 +HG00240 36 34.84 +HG00240 37 34.83 +HG00240 38 34.69 +HG00240 39 34.79 +HG00240 40 34.62 +HG00240 41 34.54 +HG00240 42 34.57 +HG00240 43 34.48 +HG00240 44 34.28 +HG00240 45 34.32 +HG00240 46 34.28 +HG00240 47 33.82 +HG00240 48 34.17 +HG00240 49 33.55 +HG00240 50 34.02 +HG00240 51 33.98 +HG00240 52 34.02 +HG00240 53 33.83 +HG00240 54 34.03 +HG00240 55 33.69 +HG00240 56 33.61 +HG00240 57 33.67 +HG00240 58 33.90 +HG00240 59 33.82 +HG00240 60 33.45 +HG00240 61 33.38 +HG00240 62 33.29 +HG00240 63 33.12 +HG00240 64 32.91 +HG00240 65 33.10 +HG00240 66 33.07 +HG00240 67 32.98 +HG00240 68 32.16 +HG00240 69 32.62 +HG00240 70 32.58 +HG00240 71 32.03 +HG00240 72 32.38 +HG00240 73 32.13 +HG00240 74 32.02 +HG00240 75 31.71 +HG00240 76 31.81 +HG00240 77 31.60 +HG00240 78 31.49 +HG00240 79 31.23 +HG00240 80 31.01 +HG00240 81 31.19 +HG00240 82 30.78 +HG00240 83 30.60 +HG00240 84 30.41 +HG00240 85 30.05 +HG00240 86 30.20 +HG00240 87 29.84 +HG00240 88 29.59 +HG00240 89 29.25 +HG00240 90 29.01 +HG00240 91 29.07 +HG00240 92 28.73 +HG00240 93 28.46 +HG00240 94 28.22 +HG00240 95 27.77 +HG00240 96 27.53 +HG00240 97 25.58 +HG00240 98 24.94 +HG00240 99 25.03 +HG00240 100 25.05 +HG00240 101 26.67 +HG00240 102 26.24 +HG00240 103 26.16 +HG00240 104 26.53 +HG00240 105 31.91 +HG00240 106 32.45 +HG00240 107 32.78 +HG00240 108 33.92 +HG00240 109 34.03 +HG00240 110 34.00 +HG00240 111 34.13 +HG00240 112 34.08 +HG00240 113 33.97 +HG00240 114 33.90 +HG00240 115 33.78 +HG00240 116 34.26 +HG00240 117 34.43 +HG00240 118 34.24 +HG00240 119 35.00 +HG00240 120 34.29 +HG00240 121 34.93 +HG00240 122 34.18 +HG00240 123 34.84 +HG00240 124 34.78 +HG00240 125 34.76 +HG00240 126 34.41 +HG00240 127 34.69 +HG00240 128 34.68 +HG00240 129 34.27 +HG00240 130 34.47 +HG00240 131 34.45 +HG00240 132 33.74 +HG00240 133 34.33 +HG00240 134 34.41 +HG00240 135 33.85 +HG00240 136 34.37 +HG00240 137 34.42 +HG00240 138 34.10 +HG00240 139 34.19 +HG00240 140 34.20 +HG00240 141 33.71 +HG00240 142 34.15 +HG00240 143 34.15 +HG00240 144 34.04 +HG00240 145 33.91 +HG00240 146 33.95 +HG00240 147 33.94 +HG00240 148 33.72 +HG00240 149 33.58 +HG00240 150 33.02 +HG00240 151 33.71 +HG00240 152 33.42 +HG00240 153 33.18 +HG00240 154 33.16 +HG00240 155 33.20 +HG00240 156 33.18 +HG00240 157 33.03 +HG00240 158 33.12 +HG00240 159 32.79 +HG00240 160 31.75 +HG00240 161 32.93 +HG00240 162 32.74 +HG00240 163 32.58 +HG00240 164 32.35 +HG00240 165 32.11 +HG00240 166 32.40 +HG00240 167 32.08 +HG00240 168 31.99 +HG00240 169 31.86 +HG00240 170 31.65 +HG00240 171 31.58 +HG00240 172 31.27 +HG00240 173 31.11 +HG00240 174 30.04 +HG00240 175 30.64 +HG00240 176 29.88 +HG00240 177 30.46 +HG00240 178 30.12 +HG00240 179 29.94 +HG00240 180 29.58 +HG00240 181 29.89 +HG00240 182 29.44 +HG00240 183 26.81 +HG00240 184 28.88 +HG00240 185 28.67 +HG00240 186 28.82 +HG00240 187 28.30 +HG00240 188 27.98 +HG00240 189 27.69 +HG00240 190 27.36 +HG00240 191 27.55 +HG00240 192 26.94 +HG00240 193 25.10 +HG00240 194 26.09 +HG00240 195 25.77 +HG00240 196 25.43 +HG00240 197 23.79 +HG00240 198 23.09 +HG00240 199 23.20 +HG00240 200 22.91 diff --git a/data/modules/riker/basic/HG00240.quality-score-distribution.txt b/data/modules/riker/basic/HG00240.quality-score-distribution.txt new file mode 100644 index 00000000..e52fba45 --- /dev/null +++ b/data/modules/riker/basic/HG00240.quality-score-distribution.txt @@ -0,0 +1,8 @@ +sample quality count frac_bases +HG00240 1 2735244 0.00028 +HG00240 6 696483380 0.07070 +HG00240 15 105248183 0.01068 +HG00240 22 192281327 0.01952 +HG00240 27 859604804 0.08726 +HG00240 33 3232006455 0.32807 +HG00240 37 4763130754 0.48349 diff --git a/data/modules/riker/basic/HG03953.base-distribution-by-cycle.txt b/data/modules/riker/basic/HG03953.base-distribution-by-cycle.txt new file mode 100644 index 00000000..1f58bdf9 --- /dev/null +++ b/data/modules/riker/basic/HG03953.base-distribution-by-cycle.txt @@ -0,0 +1,301 @@ +sample read_end cycle frac_a frac_c frac_g frac_t frac_n +HG03953 1 1 0.30975 0.18919 0.19019 0.31022 0.00065 +HG03953 1 2 0.30713 0.19160 0.19281 0.30819 0.00027 +HG03953 1 3 0.30462 0.19428 0.19553 0.30557 0.00000 +HG03953 1 4 0.30297 0.19619 0.19728 0.30355 0.00001 +HG03953 1 5 0.30289 0.19593 0.19741 0.30377 0.00000 +HG03953 1 6 0.29902 0.19995 0.20136 0.29967 0.00000 +HG03953 1 7 0.30009 0.19900 0.20029 0.30060 0.00001 +HG03953 1 8 0.30112 0.19832 0.19923 0.30132 0.00000 +HG03953 1 9 0.30170 0.19760 0.19878 0.30192 0.00000 +HG03953 1 10 0.29928 0.19991 0.20117 0.29964 0.00000 +HG03953 1 11 0.30018 0.19903 0.19999 0.30081 0.00000 +HG03953 1 12 0.29995 0.19940 0.20026 0.30039 0.00000 +HG03953 1 13 0.30100 0.19803 0.19923 0.30173 0.00000 +HG03953 1 14 0.30030 0.19868 0.19982 0.30121 0.00000 +HG03953 1 15 0.29995 0.19904 0.20032 0.30070 0.00000 +HG03953 1 16 0.30011 0.19908 0.20017 0.30064 0.00000 +HG03953 1 17 0.30006 0.19912 0.20017 0.30065 0.00000 +HG03953 1 18 0.29951 0.19962 0.20060 0.30027 0.00000 +HG03953 1 19 0.29910 0.19990 0.20126 0.29974 0.00000 +HG03953 1 20 0.29843 0.20070 0.20187 0.29900 0.00000 +HG03953 1 21 0.29835 0.20080 0.20199 0.29885 0.00001 +HG03953 1 22 0.29789 0.20143 0.20239 0.29826 0.00003 +HG03953 1 23 0.29802 0.20130 0.20233 0.29835 0.00000 +HG03953 1 24 0.29704 0.20223 0.20346 0.29727 0.00000 +HG03953 1 25 0.29737 0.20181 0.20321 0.29761 0.00000 +HG03953 1 26 0.29704 0.20209 0.20336 0.29751 0.00000 +HG03953 1 27 0.29662 0.20253 0.20367 0.29718 0.00000 +HG03953 1 28 0.29666 0.20270 0.20361 0.29703 0.00000 +HG03953 1 29 0.29646 0.20266 0.20378 0.29710 0.00001 +HG03953 1 30 0.29597 0.20307 0.20445 0.29651 0.00000 +HG03953 1 31 0.29580 0.20328 0.20458 0.29634 0.00001 +HG03953 1 32 0.29555 0.20347 0.20477 0.29621 0.00000 +HG03953 1 33 0.29556 0.20350 0.20491 0.29602 0.00000 +HG03953 1 34 0.29557 0.20364 0.20479 0.29600 0.00000 +HG03953 1 35 0.29473 0.20415 0.20550 0.29560 0.00003 +HG03953 1 36 0.29519 0.20392 0.20515 0.29575 0.00000 +HG03953 1 37 0.29540 0.20359 0.20496 0.29604 0.00000 +HG03953 1 38 0.29508 0.20400 0.20541 0.29551 0.00000 +HG03953 1 39 0.29490 0.20431 0.20549 0.29530 0.00000 +HG03953 1 40 0.29471 0.20434 0.20585 0.29509 0.00000 +HG03953 1 41 0.29471 0.20432 0.20558 0.29539 0.00000 +HG03953 1 42 0.29445 0.20436 0.20579 0.29540 0.00000 +HG03953 1 43 0.29448 0.20436 0.20567 0.29548 0.00000 +HG03953 1 44 0.29409 0.20486 0.20609 0.29496 0.00001 +HG03953 1 45 0.29411 0.20500 0.20608 0.29481 0.00000 +HG03953 1 46 0.29438 0.20471 0.20603 0.29487 0.00001 +HG03953 1 47 0.29431 0.20475 0.20603 0.29490 0.00001 +HG03953 1 48 0.29428 0.20499 0.20618 0.29455 0.00000 +HG03953 1 49 0.29391 0.20514 0.20630 0.29465 0.00001 +HG03953 1 50 0.29386 0.20507 0.20627 0.29480 0.00001 +HG03953 1 51 0.29414 0.20482 0.20610 0.29494 0.00000 +HG03953 1 52 0.29386 0.20510 0.20617 0.29486 0.00000 +HG03953 1 53 0.29412 0.20487 0.20599 0.29501 0.00000 +HG03953 1 54 0.29393 0.20506 0.20633 0.29467 0.00001 +HG03953 1 55 0.29362 0.20548 0.20662 0.29428 0.00000 +HG03953 1 56 0.29343 0.20548 0.20659 0.29447 0.00003 +HG03953 1 57 0.29377 0.20522 0.20625 0.29476 0.00000 +HG03953 1 58 0.29391 0.20518 0.20599 0.29491 0.00000 +HG03953 1 59 0.29333 0.20549 0.20653 0.29464 0.00001 +HG03953 1 60 0.29341 0.20567 0.20686 0.29404 0.00002 +HG03953 1 61 0.29343 0.20566 0.20674 0.29416 0.00001 +HG03953 1 62 0.29356 0.20548 0.20645 0.29450 0.00000 +HG03953 1 63 0.29396 0.20510 0.20656 0.29437 0.00000 +HG03953 1 64 0.29359 0.20534 0.20689 0.29418 0.00000 +HG03953 1 65 0.29347 0.20560 0.20674 0.29419 0.00000 +HG03953 1 66 0.29353 0.20559 0.20658 0.29429 0.00000 +HG03953 1 67 0.29343 0.20559 0.20682 0.29415 0.00001 +HG03953 1 68 0.29378 0.20534 0.20651 0.29437 0.00000 +HG03953 1 69 0.29333 0.20552 0.20697 0.29418 0.00000 +HG03953 1 70 0.29317 0.20575 0.20719 0.29388 0.00000 +HG03953 1 71 0.29316 0.20585 0.20720 0.29379 0.00000 +HG03953 1 72 0.29318 0.20588 0.20693 0.29400 0.00000 +HG03953 1 73 0.29337 0.20573 0.20691 0.29399 0.00000 +HG03953 1 74 0.29345 0.20566 0.20699 0.29389 0.00001 +HG03953 1 75 0.29312 0.20590 0.20713 0.29385 0.00000 +HG03953 1 76 0.29315 0.20588 0.20713 0.29384 0.00000 +HG03953 1 77 0.29326 0.20545 0.20696 0.29433 0.00000 +HG03953 1 78 0.29333 0.20570 0.20694 0.29402 0.00000 +HG03953 1 79 0.29309 0.20594 0.20729 0.29368 0.00001 +HG03953 1 80 0.29279 0.20622 0.20751 0.29346 0.00002 +HG03953 1 81 0.29321 0.20570 0.20714 0.29394 0.00000 +HG03953 1 82 0.29349 0.20581 0.20673 0.29397 0.00000 +HG03953 1 83 0.29364 0.20540 0.20649 0.29446 0.00000 +HG03953 1 84 0.29305 0.20602 0.20727 0.29365 0.00002 +HG03953 1 85 0.29312 0.20595 0.20723 0.29370 0.00000 +HG03953 1 86 0.29354 0.20562 0.20672 0.29411 0.00000 +HG03953 1 87 0.29329 0.20560 0.20693 0.29417 0.00000 +HG03953 1 88 0.29324 0.20588 0.20716 0.29371 0.00001 +HG03953 1 89 0.29320 0.20615 0.20709 0.29355 0.00001 +HG03953 1 90 0.29299 0.20609 0.20730 0.29362 0.00001 +HG03953 1 91 0.29299 0.20593 0.20749 0.29359 0.00000 +HG03953 1 92 0.29323 0.20581 0.20711 0.29385 0.00000 +HG03953 1 93 0.29335 0.20574 0.20707 0.29384 0.00000 +HG03953 1 94 0.29301 0.20615 0.20740 0.29343 0.00001 +HG03953 1 95 0.29299 0.20596 0.20746 0.29357 0.00002 +HG03953 1 96 0.29272 0.20626 0.20750 0.29352 0.00001 +HG03953 1 97 0.29288 0.20610 0.20715 0.29386 0.00000 +HG03953 1 98 0.29323 0.20587 0.20714 0.29374 0.00001 +HG03953 1 99 0.29291 0.20603 0.20744 0.29362 0.00001 +HG03953 1 100 0.29280 0.20615 0.20771 0.29334 0.00000 +HG03953 1 101 0.29267 0.20620 0.20771 0.29341 0.00000 +HG03953 1 102 0.29302 0.20603 0.20728 0.29367 0.00001 +HG03953 1 103 0.29306 0.20611 0.20739 0.29344 0.00000 +HG03953 1 104 0.29280 0.20610 0.20775 0.29335 0.00000 +HG03953 1 105 0.29278 0.20616 0.20771 0.29333 0.00001 +HG03953 1 106 0.29292 0.20609 0.20721 0.29377 0.00001 +HG03953 1 107 0.29311 0.20578 0.20718 0.29387 0.00005 +HG03953 1 108 0.29318 0.20584 0.20716 0.29381 0.00000 +HG03953 1 109 0.29289 0.20610 0.20736 0.29364 0.00001 +HG03953 1 110 0.29287 0.20606 0.20729 0.29377 0.00002 +HG03953 1 111 0.29299 0.20582 0.20745 0.29373 0.00000 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130 0.29280 0.20609 0.20753 0.29359 0.00000 +HG03953 1 131 0.29293 0.20607 0.20737 0.29359 0.00004 +HG03953 1 132 0.29305 0.20609 0.20731 0.29353 0.00003 +HG03953 1 133 0.29295 0.20604 0.20728 0.29371 0.00001 +HG03953 1 134 0.29266 0.20616 0.20760 0.29356 0.00002 +HG03953 1 135 0.29280 0.20616 0.20761 0.29339 0.00004 +HG03953 1 136 0.29283 0.20601 0.20743 0.29372 0.00001 +HG03953 1 137 0.29333 0.20571 0.20726 0.29370 0.00000 +HG03953 1 138 0.29322 0.20569 0.20724 0.29383 0.00002 +HG03953 1 139 0.29295 0.20583 0.20739 0.29360 0.00024 +HG03953 1 140 0.29313 0.20580 0.20749 0.29353 0.00005 +HG03953 1 141 0.29325 0.20573 0.20731 0.29367 0.00004 +HG03953 1 142 0.29336 0.20572 0.20711 0.29377 0.00005 +HG03953 1 143 0.29337 0.20570 0.20706 0.29382 0.00004 +HG03953 1 144 0.29311 0.20590 0.20727 0.29369 0.00003 +HG03953 1 145 0.29308 0.20584 0.20736 0.29369 0.00003 +HG03953 1 146 0.29320 0.20556 0.20722 0.29396 0.00006 +HG03953 1 147 0.29359 0.20546 0.20683 0.29408 0.00003 +HG03953 1 148 0.29369 0.20534 0.20673 0.29421 0.00002 +HG03953 1 149 0.29353 0.20549 0.20684 0.29411 0.00003 +HG03953 1 150 0.29344 0.20553 0.20689 0.29414 0.00001 +HG03953 2 1 0.31019 0.18710 0.19115 0.31076 0.00079 +HG03953 2 2 0.30655 0.19108 0.19517 0.30715 0.00004 +HG03953 2 3 0.30220 0.19552 0.19956 0.30271 0.00002 +HG03953 2 4 0.29930 0.19848 0.20248 0.29972 0.00001 +HG03953 2 5 0.30228 0.19528 0.19961 0.30283 0.00000 +HG03953 2 6 0.29601 0.20150 0.20571 0.29677 0.00001 +HG03953 2 7 0.29802 0.19991 0.20400 0.29805 0.00002 +HG03953 2 8 0.29995 0.19790 0.20195 0.30017 0.00003 +HG03953 2 9 0.30027 0.19742 0.20160 0.30071 0.00000 +HG03953 2 10 0.29799 0.19976 0.20380 0.29845 0.00000 +HG03953 2 11 0.29941 0.19822 0.20247 0.29989 0.00001 +HG03953 2 12 0.29920 0.19819 0.20252 0.30008 0.00001 +HG03953 2 13 0.30096 0.19657 0.20072 0.30172 0.00002 +HG03953 2 14 0.29995 0.19725 0.20173 0.30106 0.00000 +HG03953 2 15 0.29932 0.19771 0.20230 0.30067 0.00000 +HG03953 2 16 0.29927 0.19798 0.20248 0.30026 0.00001 +HG03953 2 17 0.29916 0.19809 0.20251 0.30018 0.00007 +HG03953 2 18 0.29873 0.19844 0.20284 0.29985 0.00014 +HG03953 2 19 0.29832 0.19870 0.20332 0.29954 0.00013 +HG03953 2 20 0.29760 0.19941 0.20403 0.29888 0.00008 +HG03953 2 21 0.29786 0.19932 0.20373 0.29903 0.00007 +HG03953 2 22 0.29732 0.19977 0.20439 0.29846 0.00007 +HG03953 2 23 0.29747 0.19971 0.20437 0.29838 0.00007 +HG03953 2 24 0.29632 0.20052 0.20546 0.29762 0.00008 +HG03953 2 25 0.29660 0.20040 0.20511 0.29781 0.00008 +HG03953 2 26 0.29630 0.20069 0.20558 0.29736 0.00007 +HG03953 2 27 0.29563 0.20138 0.20593 0.29692 0.00013 +HG03953 2 28 0.29586 0.20127 0.20579 0.29694 0.00014 +HG03953 2 29 0.29552 0.20130 0.20606 0.29699 0.00014 +HG03953 2 30 0.29522 0.20161 0.20635 0.29666 0.00016 +HG03953 2 31 0.29493 0.20196 0.20650 0.29648 0.00014 +HG03953 2 32 0.29476 0.20213 0.20671 0.29625 0.00014 +HG03953 2 33 0.29470 0.20217 0.20679 0.29622 0.00013 +HG03953 2 34 0.29482 0.20220 0.20673 0.29604 0.00020 +HG03953 2 35 0.29412 0.20273 0.20734 0.29554 0.00027 +HG03953 2 36 0.29435 0.20264 0.20718 0.29556 0.00028 +HG03953 2 37 0.29458 0.20238 0.20667 0.29610 0.00027 +HG03953 2 38 0.29419 0.20276 0.20722 0.29555 0.00028 +HG03953 2 39 0.29419 0.20272 0.20732 0.29544 0.00034 +HG03953 2 40 0.29379 0.20302 0.20743 0.29549 0.00028 +HG03953 2 41 0.29373 0.20289 0.20738 0.29552 0.00048 +HG03953 2 42 0.29377 0.20286 0.20747 0.29548 0.00042 +HG03953 2 43 0.29380 0.20286 0.20727 0.29558 0.00048 +HG03953 2 44 0.29356 0.20326 0.20758 0.29506 0.00055 +HG03953 2 45 0.29330 0.20336 0.20796 0.29490 0.00048 +HG03953 2 46 0.29353 0.20312 0.20757 0.29530 0.00048 +HG03953 2 47 0.29350 0.20330 0.20776 0.29489 0.00055 +HG03953 2 48 0.29337 0.20355 0.20769 0.29479 0.00061 +HG03953 2 49 0.29332 0.20356 0.20777 0.29473 0.00061 +HG03953 2 50 0.29314 0.20367 0.20801 0.29458 0.00061 +HG03953 2 51 0.29328 0.20331 0.20790 0.29483 0.00068 +HG03953 2 52 0.29321 0.20344 0.20774 0.29486 0.00076 +HG03953 2 53 0.29336 0.20327 0.20745 0.29504 0.00089 +HG03953 2 54 0.29322 0.20336 0.20781 0.29465 0.00095 +HG03953 2 55 0.29269 0.20380 0.20823 0.29427 0.00102 +HG03953 2 56 0.29268 0.20374 0.20826 0.29422 0.00110 +HG03953 2 57 0.29296 0.20357 0.20760 0.29483 0.00103 +HG03953 2 58 0.29307 0.20353 0.20746 0.29486 0.00108 +HG03953 2 59 0.29273 0.20358 0.20813 0.29448 0.00109 +HG03953 2 60 0.29251 0.20412 0.20832 0.29395 0.00110 +HG03953 2 61 0.29262 0.20385 0.20844 0.29400 0.00109 +HG03953 2 62 0.29299 0.20388 0.20792 0.29412 0.00109 +HG03953 2 63 0.29326 0.20346 0.20786 0.29434 0.00109 +HG03953 2 64 0.29283 0.20365 0.20813 0.29423 0.00116 +HG03953 2 65 0.29261 0.20374 0.20838 0.29417 0.00109 +HG03953 2 66 0.29259 0.20392 0.20820 0.29419 0.00110 +HG03953 2 67 0.29279 0.20404 0.20819 0.29390 0.00109 +HG03953 2 68 0.29293 0.20389 0.20770 0.29438 0.00110 +HG03953 2 69 0.29263 0.20392 0.20810 0.29412 0.00123 +HG03953 2 70 0.29208 0.20426 0.20857 0.29393 0.00116 +HG03953 2 71 0.29226 0.20415 0.20845 0.29398 0.00116 +HG03953 2 72 0.29242 0.20432 0.20826 0.29389 0.00110 +HG03953 2 73 0.29291 0.20411 0.20788 0.29400 0.00110 +HG03953 2 74 0.29257 0.20394 0.20808 0.29424 0.00116 +HG03953 2 75 0.29261 0.20424 0.20834 0.29378 0.00104 +HG03953 2 76 0.29252 0.20406 0.20828 0.29388 0.00125 +HG03953 2 77 0.29276 0.20407 0.20783 0.29417 0.00116 +HG03953 2 78 0.29293 0.20395 0.20787 0.29396 0.00129 +HG03953 2 79 0.29261 0.20430 0.20822 0.29363 0.00123 +HG03953 2 80 0.29219 0.20451 0.20849 0.29370 0.00111 +HG03953 2 81 0.29247 0.20399 0.20815 0.29409 0.00129 +HG03953 2 82 0.29279 0.20410 0.20793 0.29408 0.00111 +HG03953 2 83 0.29287 0.20387 0.20758 0.29445 0.00123 +HG03953 2 84 0.29254 0.20434 0.20804 0.29397 0.00110 +HG03953 2 85 0.29224 0.20447 0.20818 0.29386 0.00125 +HG03953 2 86 0.29270 0.20407 0.20820 0.29387 0.00116 +HG03953 2 87 0.29286 0.20397 0.20780 0.29421 0.00116 +HG03953 2 88 0.29261 0.20434 0.20814 0.29369 0.00123 +HG03953 2 89 0.29231 0.20444 0.20830 0.29379 0.00116 +HG03953 2 90 0.29241 0.20457 0.20831 0.29355 0.00116 +HG03953 2 91 0.29243 0.20445 0.20826 0.29360 0.00126 +HG03953 2 92 0.29239 0.20432 0.20830 0.29389 0.00110 +HG03953 2 93 0.29291 0.20417 0.20791 0.29385 0.00117 +HG03953 2 94 0.29228 0.20455 0.20843 0.29361 0.00113 +HG03953 2 95 0.29235 0.20458 0.20846 0.29350 0.00111 +HG03953 2 96 0.29239 0.20448 0.20833 0.29370 0.00111 +HG03953 2 97 0.29230 0.20446 0.20825 0.29386 0.00112 +HG03953 2 98 0.29235 0.20443 0.20810 0.29394 0.00118 +HG03953 2 99 0.29240 0.20454 0.20840 0.29355 0.00110 +HG03953 2 100 0.29211 0.20474 0.20856 0.29342 0.00117 +HG03953 2 101 0.29202 0.20486 0.20887 0.29315 0.00110 +HG03953 2 102 0.29240 0.20443 0.20831 0.29366 0.00121 +HG03953 2 103 0.29263 0.20427 0.20828 0.29357 0.00125 +HG03953 2 104 0.29243 0.20452 0.20854 0.29340 0.00112 +HG03953 2 105 0.29223 0.20455 0.20870 0.29335 0.00117 +HG03953 2 106 0.29254 0.20439 0.20821 0.29376 0.00110 +HG03953 2 107 0.29260 0.20418 0.20804 0.29414 0.00105 +HG03953 2 108 0.29277 0.20421 0.20787 0.29409 0.00106 +HG03953 2 109 0.29245 0.20447 0.20835 0.29362 0.00112 +HG03953 2 110 0.29226 0.20436 0.20824 0.29403 0.00111 +HG03953 2 111 0.29246 0.20434 0.20828 0.29379 0.00112 +HG03953 2 112 0.29227 0.20447 0.20826 0.29383 0.00117 +HG03953 2 113 0.29271 0.20420 0.20784 0.29407 0.00118 +HG03953 2 114 0.29247 0.20427 0.20799 0.29410 0.00117 +HG03953 2 115 0.29232 0.20446 0.20828 0.29376 0.00117 +HG03953 2 116 0.29249 0.20440 0.20815 0.29379 0.00117 +HG03953 2 117 0.29250 0.20447 0.20815 0.29377 0.00112 +HG03953 2 118 0.29265 0.20426 0.20788 0.29409 0.00112 +HG03953 2 119 0.29244 0.20436 0.20818 0.29390 0.00112 +HG03953 2 120 0.29220 0.20470 0.20847 0.29353 0.00111 +HG03953 2 121 0.29224 0.20474 0.20835 0.29351 0.00117 +HG03953 2 122 0.29253 0.20427 0.20807 0.29395 0.00119 +HG03953 2 123 0.29273 0.20423 0.20788 0.29393 0.00123 +HG03953 2 124 0.29250 0.20445 0.20812 0.29376 0.00117 +HG03953 2 125 0.29221 0.20450 0.20834 0.29371 0.00123 +HG03953 2 126 0.29249 0.20421 0.20826 0.29381 0.00124 +HG03953 2 127 0.29252 0.20424 0.20796 0.29404 0.00124 +HG03953 2 128 0.29288 0.20418 0.20787 0.29378 0.00130 +HG03953 2 129 0.29267 0.20429 0.20815 0.29372 0.00118 +HG03953 2 130 0.29249 0.20445 0.20820 0.29369 0.00117 +HG03953 2 131 0.29268 0.20449 0.20826 0.29338 0.00118 +HG03953 2 132 0.29268 0.20450 0.20790 0.29367 0.00125 +HG03953 2 133 0.29245 0.20460 0.20801 0.29374 0.00119 +HG03953 2 134 0.29228 0.20465 0.20841 0.29349 0.00117 +HG03953 2 135 0.29232 0.20467 0.20847 0.29351 0.00104 +HG03953 2 136 0.29280 0.20420 0.20795 0.29389 0.00117 +HG03953 2 137 0.29292 0.20432 0.20777 0.29395 0.00104 +HG03953 2 138 0.29323 0.20409 0.20784 0.29380 0.00104 +HG03953 2 139 0.29262 0.20424 0.20819 0.29384 0.00112 +HG03953 2 140 0.29283 0.20427 0.20813 0.29366 0.00111 +HG03953 2 141 0.29290 0.20434 0.20774 0.29385 0.00117 +HG03953 2 142 0.29323 0.20404 0.20772 0.29385 0.00116 +HG03953 2 143 0.29311 0.20394 0.20772 0.29417 0.00105 +HG03953 2 144 0.29275 0.20419 0.20779 0.29407 0.00119 +HG03953 2 145 0.29271 0.20441 0.20795 0.29376 0.00117 +HG03953 2 146 0.29283 0.20422 0.20776 0.29415 0.00103 +HG03953 2 147 0.29317 0.20390 0.20736 0.29440 0.00116 +HG03953 2 148 0.29341 0.20392 0.20734 0.29423 0.00110 +HG03953 2 149 0.29329 0.20387 0.20739 0.29431 0.00114 +HG03953 2 150 0.29310 0.20400 0.20746 0.29421 0.00123 diff --git a/data/modules/riker/basic/HG03953.mean-quality-by-cycle.txt b/data/modules/riker/basic/HG03953.mean-quality-by-cycle.txt new file mode 100644 index 00000000..4acd804f --- /dev/null +++ b/data/modules/riker/basic/HG03953.mean-quality-by-cycle.txt @@ -0,0 +1,301 @@ +sample cycle mean_quality +HG03953 1 29.59 +HG03953 2 29.63 +HG03953 3 29.65 +HG03953 4 29.69 +HG03953 5 29.77 +HG03953 6 29.75 +HG03953 7 29.78 +HG03953 8 29.80 +HG03953 9 29.80 +HG03953 10 29.81 +HG03953 11 29.81 +HG03953 12 29.82 +HG03953 13 29.82 +HG03953 14 29.81 +HG03953 15 29.82 +HG03953 16 29.82 +HG03953 17 29.82 +HG03953 18 29.82 +HG03953 19 29.81 +HG03953 20 29.79 +HG03953 21 29.80 +HG03953 22 29.81 +HG03953 23 29.80 +HG03953 24 29.79 +HG03953 25 29.77 +HG03953 26 29.72 +HG03953 27 29.71 +HG03953 28 29.69 +HG03953 29 29.71 +HG03953 30 29.68 +HG03953 31 29.67 +HG03953 32 29.68 +HG03953 33 29.67 +HG03953 34 29.65 +HG03953 35 29.65 +HG03953 36 29.66 +HG03953 37 29.63 +HG03953 38 29.64 +HG03953 39 29.62 +HG03953 40 29.63 +HG03953 41 29.64 +HG03953 42 29.62 +HG03953 43 29.59 +HG03953 44 29.58 +HG03953 45 29.59 +HG03953 46 29.61 +HG03953 47 29.59 +HG03953 48 29.58 +HG03953 49 29.59 +HG03953 50 29.56 +HG03953 51 29.56 +HG03953 52 29.55 +HG03953 53 29.54 +HG03953 54 29.54 +HG03953 55 29.56 +HG03953 56 29.54 +HG03953 57 29.53 +HG03953 58 29.53 +HG03953 59 29.53 +HG03953 60 29.52 +HG03953 61 29.52 +HG03953 62 29.50 +HG03953 63 29.51 +HG03953 64 29.50 +HG03953 65 29.48 +HG03953 66 29.48 +HG03953 67 29.49 +HG03953 68 29.49 +HG03953 69 29.48 +HG03953 70 29.48 +HG03953 71 29.48 +HG03953 72 29.48 +HG03953 73 29.45 +HG03953 74 29.45 +HG03953 75 29.44 +HG03953 76 29.44 +HG03953 77 29.44 +HG03953 78 29.44 +HG03953 79 29.44 +HG03953 80 29.42 +HG03953 81 29.42 +HG03953 82 29.41 +HG03953 83 29.42 +HG03953 84 29.40 +HG03953 85 29.38 +HG03953 86 29.37 +HG03953 87 29.36 +HG03953 88 29.36 +HG03953 89 29.36 +HG03953 90 29.38 +HG03953 91 29.36 +HG03953 92 29.34 +HG03953 93 29.35 +HG03953 94 29.34 +HG03953 95 29.34 +HG03953 96 29.32 +HG03953 97 29.31 +HG03953 98 29.32 +HG03953 99 29.30 +HG03953 100 29.31 +HG03953 101 29.31 +HG03953 102 29.29 +HG03953 103 29.29 +HG03953 104 29.30 +HG03953 105 29.28 +HG03953 106 29.27 +HG03953 107 29.26 +HG03953 108 29.26 +HG03953 109 29.27 +HG03953 110 29.24 +HG03953 111 29.24 +HG03953 112 29.25 +HG03953 113 29.24 +HG03953 114 29.19 +HG03953 115 29.19 +HG03953 116 29.21 +HG03953 117 29.22 +HG03953 118 29.20 +HG03953 119 29.21 +HG03953 120 29.18 +HG03953 121 29.18 +HG03953 122 29.17 +HG03953 123 29.17 +HG03953 124 29.16 +HG03953 125 29.17 +HG03953 126 29.17 +HG03953 127 29.15 +HG03953 128 29.14 +HG03953 129 29.14 +HG03953 130 29.12 +HG03953 131 29.10 +HG03953 132 29.07 +HG03953 133 29.04 +HG03953 134 29.10 +HG03953 135 29.11 +HG03953 136 29.09 +HG03953 137 29.05 +HG03953 138 29.05 +HG03953 139 29.05 +HG03953 140 29.04 +HG03953 141 29.06 +HG03953 142 29.08 +HG03953 143 29.07 +HG03953 144 29.03 +HG03953 145 28.97 +HG03953 146 29.03 +HG03953 147 29.03 +HG03953 148 28.99 +HG03953 149 29.15 +HG03953 150 29.14 +HG03953 151 29.81 +HG03953 152 29.79 +HG03953 153 29.76 +HG03953 154 29.76 +HG03953 155 29.78 +HG03953 156 29.73 +HG03953 157 29.74 +HG03953 158 29.70 +HG03953 159 29.73 +HG03953 160 29.72 +HG03953 161 29.71 +HG03953 162 29.70 +HG03953 163 29.70 +HG03953 164 29.68 +HG03953 165 29.68 +HG03953 166 29.67 +HG03953 167 29.67 +HG03953 168 29.66 +HG03953 169 29.66 +HG03953 170 29.66 +HG03953 171 29.66 +HG03953 172 29.64 +HG03953 173 29.64 +HG03953 174 29.63 +HG03953 175 29.62 +HG03953 176 29.62 +HG03953 177 29.59 +HG03953 178 29.58 +HG03953 179 29.60 +HG03953 180 29.59 +HG03953 181 29.56 +HG03953 182 29.58 +HG03953 183 29.57 +HG03953 184 29.55 +HG03953 185 29.52 +HG03953 186 29.52 +HG03953 187 29.52 +HG03953 188 29.51 +HG03953 189 29.50 +HG03953 190 29.50 +HG03953 191 29.49 +HG03953 192 29.50 +HG03953 193 29.49 +HG03953 194 29.48 +HG03953 195 29.46 +HG03953 196 29.46 +HG03953 197 29.46 +HG03953 198 29.44 +HG03953 199 29.44 +HG03953 200 29.44 +HG03953 201 29.43 +HG03953 202 29.43 +HG03953 203 29.43 +HG03953 204 29.42 +HG03953 205 29.39 +HG03953 206 29.39 +HG03953 207 29.38 +HG03953 208 29.38 +HG03953 209 29.37 +HG03953 210 29.35 +HG03953 211 29.37 +HG03953 212 29.36 +HG03953 213 29.36 +HG03953 214 29.34 +HG03953 215 29.34 +HG03953 216 29.33 +HG03953 217 29.33 +HG03953 218 29.33 +HG03953 219 29.32 +HG03953 220 29.29 +HG03953 221 29.30 +HG03953 222 29.30 +HG03953 223 29.29 +HG03953 224 29.29 +HG03953 225 29.27 +HG03953 226 29.25 +HG03953 227 29.28 +HG03953 228 29.26 +HG03953 229 29.25 +HG03953 230 29.24 +HG03953 231 29.27 +HG03953 232 29.25 +HG03953 233 29.25 +HG03953 234 29.24 +HG03953 235 29.21 +HG03953 236 29.21 +HG03953 237 29.18 +HG03953 238 29.20 +HG03953 239 29.18 +HG03953 240 29.18 +HG03953 241 29.18 +HG03953 242 29.17 +HG03953 243 29.17 +HG03953 244 29.17 +HG03953 245 29.17 +HG03953 246 29.18 +HG03953 247 29.15 +HG03953 248 29.13 +HG03953 249 29.11 +HG03953 250 29.11 +HG03953 251 29.09 +HG03953 252 29.11 +HG03953 253 29.11 +HG03953 254 29.09 +HG03953 255 29.07 +HG03953 256 29.05 +HG03953 257 29.09 +HG03953 258 29.05 +HG03953 259 29.02 +HG03953 260 29.02 +HG03953 261 29.03 +HG03953 262 28.99 +HG03953 263 29.01 +HG03953 264 29.00 +HG03953 265 29.02 +HG03953 266 29.00 +HG03953 267 29.03 +HG03953 268 29.02 +HG03953 269 29.00 +HG03953 270 28.97 +HG03953 271 28.96 +HG03953 272 28.95 +HG03953 273 28.95 +HG03953 274 28.95 +HG03953 275 28.98 +HG03953 276 28.94 +HG03953 277 28.95 +HG03953 278 28.91 +HG03953 279 28.87 +HG03953 280 28.86 +HG03953 281 28.90 +HG03953 282 28.87 +HG03953 283 28.86 +HG03953 284 28.89 +HG03953 285 28.80 +HG03953 286 28.86 +HG03953 287 28.84 +HG03953 288 28.86 +HG03953 289 28.81 +HG03953 290 28.79 +HG03953 291 28.81 +HG03953 292 28.82 +HG03953 293 28.79 +HG03953 294 28.84 +HG03953 295 28.81 +HG03953 296 28.88 +HG03953 297 28.76 +HG03953 298 28.68 +HG03953 299 28.92 +HG03953 300 28.90 diff --git a/data/modules/riker/basic/HG03953.quality-score-distribution.txt b/data/modules/riker/basic/HG03953.quality-score-distribution.txt new file mode 100644 index 00000000..c0056362 --- /dev/null +++ b/data/modules/riker/basic/HG03953.quality-score-distribution.txt @@ -0,0 +1,8 @@ +sample quality count frac_bases +HG03953 3 620816 0.00008 +HG03953 4 724879 0.00010 +HG03953 5 2942942 0.00039 +HG03953 6 23332683 0.00306 +HG03953 10 150105887 0.01968 +HG03953 20 117195568 0.01536 +HG03953 30 7333855994 0.96134 diff --git a/data/modules/riker/gcbias/HG03953.gcbias-detail.txt b/data/modules/riker/gcbias/HG03953.gcbias-detail.txt new file mode 100644 index 00000000..bd16e6f5 --- /dev/null +++ b/data/modules/riker/gcbias/HG03953.gcbias-detail.txt @@ -0,0 +1,102 @@ +sample gc windows read_starts reported_base_quality empirical_base_quality normalized_coverage error_bar_width +HG03953 0 139943 1752 28.66 14.42 0.73802 0.01763 +HG03953 1 102415 3123 29.13 18.94 1.79760 0.03217 +HG03953 2 118963 2432 28.85 15.95 1.20514 0.02444 +HG03953 3 152188 17916 25.61 20.16 6.93978 0.05185 +HG03953 4 167741 6689 27.95 15.94 2.35075 0.02874 +HG03953 5 173331 5672 27.15 15.17 1.92906 0.02561 +HG03953 6 196374 8754 27.28 13.54 2.62789 0.02809 +HG03953 7 211224 12377 28.46 13.39 3.45428 0.03105 +HG03953 8 241141 12908 28.39 14.20 3.15554 0.02777 +HG03953 9 270285 17428 27.09 14.19 3.80111 0.02879 +HG03953 10 318092 16492 28.48 13.96 3.05637 0.02380 +HG03953 11 384289 18154 28.36 13.18 2.78484 0.02067 +HG03953 12 493642 20580 27.97 14.04 2.45764 0.01713 +HG03953 13 646401 22830 27.68 14.69 2.08204 0.01378 +HG03953 14 910146 27658 28.21 15.07 1.79141 0.01077 +HG03953 15 1331519 38060 28.15 16.12 1.68503 0.00864 +HG03953 16 1984326 51961 27.85 17.63 1.54365 0.00677 +HG03953 17 2974388 71568 27.98 19.07 1.41843 0.00530 +HG03953 18 4457600 97499 28.57 19.25 1.28939 0.00413 +HG03953 19 6577070 141957 28.84 18.86 1.27236 0.00338 +HG03953 20 9491423 198979 28.93 19.22 1.23584 0.00277 +HG03953 21 13340318 278511 29.04 19.14 1.23073 0.00233 +HG03953 22 18205832 353007 29.11 20.43 1.14303 0.00192 +HG03953 23 24158082 452758 29.17 21.05 1.10481 0.00164 +HG03953 24 31177718 568157 29.21 21.47 1.07426 0.00143 +HG03953 25 39099768 688047 29.24 22.39 1.03736 0.00125 +HG03953 26 47617250 824045 29.28 22.71 1.02017 0.00112 +HG03953 27 56526703 958331 29.30 23.20 0.99942 0.00102 +HG03953 28 65511831 1099052 29.33 23.41 0.98897 0.00094 +HG03953 29 74283104 1236692 29.35 23.51 0.98142 0.00088 +HG03953 30 82645611 1368449 29.36 23.60 0.97610 0.00083 +HG03953 31 90463413 1490378 29.38 23.62 0.97120 0.00080 +HG03953 32 97549873 1614770 29.38 23.55 0.97582 0.00077 +HG03953 33 103813965 1726878 29.40 23.42 0.98060 0.00075 +HG03953 34 109265121 1825735 29.40 23.30 0.98501 0.00073 +HG03953 35 113811544 1918548 29.41 23.12 0.99374 0.00072 +HG03953 36 117388968 2004100 29.41 22.89 1.00642 0.00071 +HG03953 37 119308737 2047906 29.40 22.67 1.01187 0.00071 +HG03953 38 119129563 2066646 29.39 22.26 1.02266 0.00071 +HG03953 39 117112751 2045222 29.38 21.80 1.02949 0.00072 +HG03953 40 113531023 2007535 29.36 21.03 1.04240 0.00074 +HG03953 41 108538915 1911539 29.36 20.90 1.03820 0.00075 +HG03953 42 102636158 1791733 29.36 20.84 1.02910 0.00077 +HG03953 43 96572772 1651660 29.37 21.15 1.00821 0.00078 +HG03953 44 91161017 1515507 29.38 21.77 0.98002 0.00080 +HG03953 45 86813127 1424620 29.40 22.27 0.96738 0.00081 +HG03953 46 83495228 1352343 29.42 22.54 0.95480 0.00082 +HG03953 47 80860980 1299828 29.43 22.73 0.94762 0.00083 +HG03953 48 78209642 1251917 29.43 22.79 0.94363 0.00084 +HG03953 49 74919937 1197204 29.43 22.88 0.94201 0.00086 +HG03953 50 70709108 1127633 29.44 23.07 0.94011 0.00089 +HG03953 51 65735082 1046043 29.44 23.26 0.93807 0.00092 +HG03953 52 60580123 965681 29.44 23.45 0.93970 0.00096 +HG03953 53 55774583 888636 29.44 23.63 0.93923 0.00100 +HG03953 54 51498035 822402 29.44 23.72 0.94141 0.00104 +HG03953 55 47734059 766843 29.45 23.77 0.94703 0.00108 +HG03953 56 44077913 711984 29.43 23.75 0.95221 0.00113 +HG03953 57 40172798 653370 29.43 23.67 0.95877 0.00119 +HG03953 58 35856348 587622 29.39 23.65 0.96609 0.00126 +HG03953 59 31149734 510879 29.41 23.55 0.96683 0.00135 +HG03953 60 26417697 437943 29.41 23.39 0.97725 0.00148 +HG03953 61 22038376 367199 29.40 23.33 0.98222 0.00162 +HG03953 62 18286530 307438 29.38 23.18 0.99109 0.00179 +HG03953 63 15159143 258074 29.36 22.98 1.00359 0.00198 +HG03953 64 12585961 217495 29.34 22.83 1.01870 0.00218 +HG03953 65 10428539 182454 29.30 22.58 1.03137 0.00241 +HG03953 66 8632633 153232 29.25 22.30 1.04638 0.00267 +HG03953 67 7041536 126784 29.21 22.05 1.06141 0.00298 +HG03953 68 5661754 104599 29.12 21.81 1.08908 0.00337 +HG03953 69 4546547 85250 29.04 21.50 1.10535 0.00379 +HG03953 70 3655053 69208 29.08 21.19 1.11621 0.00424 +HG03953 71 2922061 56209 29.06 21.09 1.13397 0.00478 +HG03953 72 2362361 45783 29.07 20.96 1.14247 0.00534 +HG03953 73 1923760 38308 29.00 20.79 1.17388 0.00600 +HG03953 74 1580488 32448 28.96 20.98 1.21027 0.00672 +HG03953 75 1323043 27827 28.98 20.96 1.23987 0.00743 +HG03953 76 1137649 23748 28.90 20.83 1.23056 0.00799 +HG03953 77 997806 21600 28.91 20.73 1.27612 0.00868 +HG03953 78 879855 19449 28.80 20.29 1.30308 0.00934 +HG03953 79 762290 16635 28.73 20.23 1.28643 0.00997 +HG03953 80 647118 13756 28.70 20.05 1.25312 0.01068 +HG03953 81 542500 11615 28.60 20.13 1.26213 0.01171 +HG03953 82 453099 10233 28.54 19.81 1.33136 0.01316 +HG03953 83 370941 8347 28.40 19.57 1.32651 0.01452 +HG03953 84 288967 7368 27.74 19.39 1.50310 0.01751 +HG03953 85 210210 5450 27.95 19.12 1.52837 0.02070 +HG03953 86 140523 3861 28.05 18.88 1.61971 0.02607 +HG03953 87 91803 2735 27.91 18.69 1.75625 0.03358 +HG03953 88 63422 1818 27.88 18.44 1.68982 0.03963 +HG03953 89 41013 1348 27.49 18.19 1.93755 0.05277 +HG03953 90 26697 883 27.84 18.62 1.94977 0.06561 +HG03953 91 17111 1195 24.94 19.79 4.11697 0.11910 +HG03953 92 10191 363 26.92 18.25 2.09979 0.11021 +HG03953 93 6471 314 25.45 18.08 2.86051 0.16143 +HG03953 94 3625 874 19.72 18.96 14.21309 0.48077 +HG03953 95 1715 25406 20.57 15.68 873.28780 5.47885 +HG03953 96 993 3976 23.11 15.61 236.03823 3.74334 +HG03953 97 664 39333 26.17 15.48 3491.99986 17.60742 +HG03953 98 358 26143 20.06 17.01 4304.84601 26.62440 +HG03953 99 158 16826 20.72 15.49 6277.82236 48.39702 +HG03953 100 501 7 18.44 15.03 0.82366 0.31131 diff --git a/data/modules/riker/gcbias/HG03953.gcbias-summary.txt b/data/modules/riker/gcbias/HG03953.gcbias-summary.txt new file mode 100644 index 00000000..29842a38 --- /dev/null +++ b/data/modules/riker/gcbias/HG03953.gcbias-summary.txt @@ -0,0 +1,2 @@ +sample window_size total_clusters aligned_reads at_dropout gc_dropout gc_0_19_normcov gc_20_39_normcov gc_40_59_normcov gc_60_79_normcov gc_80_100_normcov +HG03953 100 25794918 51627320 1.28581 0.78299 1.60739 1.00695 0.97494 1.02991 3.67370 diff --git a/data/modules/riker/hybcap/HG00240.hybcap-metrics.txt b/data/modules/riker/hybcap/HG00240.hybcap-metrics.txt new file mode 100644 index 00000000..e884ba2f --- /dev/null +++ b/data/modules/riker/hybcap/HG00240.hybcap-metrics.txt @@ -0,0 +1,2 @@ +sample panel_name genome_size bait_territory target_territory bait_design_efficiency total_reads deduped_reads deduped_reads_aligned total_bases bases_aligned deduped_bases_aligned on_bait_bases near_bait_bases off_bait_bases on_target_bases on_target_bases_from_pairs selected_pairs selected_unique_pairs frac_deduped_reads frac_deduped_reads_aligned frac_selected_bases frac_off_bait on_bait_vs_selected mean_bait_coverage mean_target_coverage median_target_coverage max_target_coverage min_target_coverage frac_uncovered_targets fold_enrichment fold_80_base_penalty frac_exc_dupe frac_exc_mapq frac_exc_overlap frac_exc_baseq frac_exc_off_target frac_target_bases_1x frac_target_bases_10x frac_target_bases_20x frac_target_bases_30x frac_target_bases_50x frac_target_bases_100x frac_target_bases_250x frac_target_bases_500x frac_target_bases_1000x at_dropout gc_dropout frac_usable_bases_on_bait frac_usable_bases_on_target hs_library_size hs_penalty_10x hs_penalty_20x hs_penalty_30x hs_penalty_40x hs_penalty_50x hs_penalty_100x +HG00240 output_1000G_Exome.v1 3217346917 46106635 46106635 1.000000 98580386 91792601 91581325 9858038600 10643786987 9978299743 4925288538 2365011060 3353487389 3832936583 3830372008 36910710 34275479 0.931145 0.997698 0.684935 0.315065 0.675595 106.82 83.13 69.00 3051 0 0.022314 32.29 3.61 0.062524 0.076124 0.032542 0.053970 0.414730 0.966910 0.888920 0.824546 0.760370 0.629690 0.327539 0.028106 0.001281 0.000048 0.40 19.63 0.499622 0.388813 246041533 9.70 10.03 10.38 10.77 11.21 14.46 diff --git a/data/modules/riker/isize/HG00240.isize-histogram.txt b/data/modules/riker/isize/HG00240.isize-histogram.txt new file mode 100644 index 00000000..bca51420 --- /dev/null +++ b/data/modules/riker/isize/HG00240.isize-histogram.txt @@ -0,0 +1,742 @@ +sample insert_size fr_count rf_count tandem_count +HG00240 1 0 3 19 +HG00240 2 18 6 12 +HG00240 3 28 9 6 +HG00240 4 41 4 5 +HG00240 5 36 4 9 +HG00240 6 37 3 11 +HG00240 7 35 8 10 +HG00240 8 39 4 2 +HG00240 9 41 5 3 +HG00240 10 33 5 3 +HG00240 11 41 3 4 +HG00240 12 32 3 4 +HG00240 13 48 6 3 +HG00240 14 40 7 1 +HG00240 15 47 3 0 +HG00240 16 41 2 0 +HG00240 17 41 5 1 +HG00240 18 52 3 2 +HG00240 19 121 4 2 +HG00240 20 92 5 1 +HG00240 21 74 3 1 +HG00240 22 73 5 2 +HG00240 23 81 8 1 +HG00240 24 90 2 1 +HG00240 25 84 10 0 +HG00240 26 71 4 1 +HG00240 27 61 8 0 +HG00240 28 70 4 1 +HG00240 29 59 8 1 +HG00240 30 84 7 0 +HG00240 31 71 6 1 +HG00240 32 92 4 2 +HG00240 33 90 9 3 +HG00240 34 91 7 1 +HG00240 35 91 9 1 +HG00240 36 85 12 2 +HG00240 37 109 7 1 +HG00240 38 109 6 2 +HG00240 39 90 9 2 +HG00240 40 97 13 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--git a/data/modules/riker/isize/HG00240.isize-metrics.txt b/data/modules/riker/isize/HG00240.isize-metrics.txt new file mode 100644 index 00000000..05eb883e --- /dev/null +++ b/data/modules/riker/isize/HG00240.isize-metrics.txt @@ -0,0 +1,2 @@ +sample pair_orientation read_pairs mean_insert_size standard_deviation median_insert_size median_absolute_deviation mode_insert_size min_insert_size max_insert_size +HG00240 FR 44718990 253.40 80.08 241.00 50.00 212 2 247959841 diff --git a/data/modules/riker/isize/HG03953.isize-histogram.txt b/data/modules/riker/isize/HG03953.isize-histogram.txt new file mode 100644 index 00000000..510909bc --- /dev/null +++ b/data/modules/riker/isize/HG03953.isize-histogram.txt @@ -0,0 +1,1087 @@ +sample insert_size fr_count rf_count tandem_count +HG03953 1 0 30 43 +HG03953 2 106 36 7 +HG03953 3 118 31 10 +HG03953 4 115 33 9 +HG03953 5 104 35 8 +HG03953 6 101 23 4 +HG03953 7 122 28 4 +HG03953 8 106 31 9 +HG03953 9 105 36 4 +HG03953 10 119 30 8 +HG03953 11 134 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+HG03953 FR 22666326 435.34 102.64 426.00 66.00 399 2 231498245 diff --git a/data/modules/riker/wgs/HG03953.wgs-coverage.txt b/data/modules/riker/wgs/HG03953.wgs-coverage.txt new file mode 100644 index 00000000..0e25a0de --- /dev/null +++ b/data/modules/riker/wgs/HG03953.wgs-coverage.txt @@ -0,0 +1,252 @@ +sample depth bases frac_bases bases_at_or_above frac_bases_at_or_above +HG03953 0 544461140 0.17890 3043453562 1.00000 +HG03953 1 701573680 0.23052 2498992422 0.82110 +HG03953 2 737951772 0.24247 1797418742 0.59059 +HG03953 3 538916709 0.17707 1059466970 0.34811 +HG03953 4 301918141 0.09920 520550261 0.17104 +HG03953 5 137550393 0.04520 218632120 0.07184 +HG03953 6 53150615 0.01746 81081727 0.02664 +HG03953 7 18081118 0.00594 27931112 0.00918 +HG03953 8 5660422 0.00186 9849994 0.00324 +HG03953 9 1779513 0.00058 4189572 0.00138 +HG03953 10 656563 0.00022 2410059 0.00079 +HG03953 11 322771 0.00011 1753496 0.00058 +HG03953 12 208733 0.00007 1430725 0.00047 +HG03953 13 150184 0.00005 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0.00000 58285 0.00002 +HG03953 241 180 0.00000 58118 0.00002 +HG03953 242 179 0.00000 57938 0.00002 +HG03953 243 168 0.00000 57759 0.00002 +HG03953 244 179 0.00000 57591 0.00002 +HG03953 245 199 0.00000 57412 0.00002 +HG03953 246 200 0.00000 57213 0.00002 +HG03953 247 204 0.00000 57013 0.00002 +HG03953 248 150 0.00000 56809 0.00002 +HG03953 249 185 0.00000 56659 0.00002 +HG03953 250 56474 0.00002 56474 0.00002 diff --git a/data/modules/riker/wgs/HG03953.wgs-metrics.txt b/data/modules/riker/wgs/HG03953.wgs-metrics.txt new file mode 100644 index 00000000..3e6e6eaf --- /dev/null +++ b/data/modules/riker/wgs/HG03953.wgs-metrics.txt @@ -0,0 +1,2 @@ +sample genome_territory mean_coverage sd_coverage median_coverage mad_coverage frac_excluded_mapq frac_excluded_dupe frac_excluded_unpaired frac_excluded_baseq frac_excluded_overlap frac_excluded_capped frac_excluded_total frac_bases_at_1x frac_bases_at_5x frac_bases_at_10x frac_bases_at_15x frac_bases_at_20x frac_bases_at_25x frac_bases_at_30x frac_bases_at_40x frac_bases_at_50x frac_bases_at_60x frac_bases_at_100x fold_80_base_penalty fold_90_base_penalty fold_95_base_penalty +HG03953 3043453562 2.06 2.10 2.00 1.00 0.05880 0.08244 0.00091 0.01497 0.00666 0.00472 0.16850 0.82110 0.07184 0.00079 0.00031 0.00022 0.00017 0.00013 0.00009 0.00007 0.00006 0.00004 2.06 0.00 0.00