Closed jeffkaufman closed 1 year ago
This estimates sequencing depths and costs corresponding to the Example Application section in the report. Output:
aav2 brinch Relative abundance of 1 in 8e+09 Weekly reads to flag for manual followup: 8e+12 Weekly agnostic cost: 3908470 Annual agnostic cost: 323240420 Annual targeted cost: 969721 aav2 crits_christoph Relative abundance of 1 in 3e+10 Weekly reads to flag for manual followup: 3e+13 Weekly agnostic cost: 30495363 Annual agnostic cost: 1985758892 Annual targeted cost: 5957277 aav2 rothman Relative abundance of 1 in 1e+11 Weekly reads to flag for manual followup: 1e+14 Weekly agnostic cost: 109483294 Annual agnostic cost: 7693131281 Annual targeted cost: 73079394 aav2 spurbeck Relative abundance of 1 in 6e+09 Weekly reads to flag for manual followup: 6e+12 Weekly agnostic cost: 5986482 Annual agnostic cost: 391297079 Annual targeted cost: 173891 aav5 brinch Relative abundance of 1 in 2e+11 Weekly reads to flag for manual followup: 2e+14 Weekly agnostic cost: 594857279 Annual agnostic cost: 2932578488 Annual targeted cost: 48797735 aav5 crits_christoph Relative abundance of 1 in 3e+10 Weekly reads to flag for manual followup: 3e+13 Weekly agnostic cost: 69255879 Annual agnostic cost: 4001305687 Annual targeted cost: 2003917 aav5 rothman Relative abundance of 1 in 1e+11 Weekly reads to flag for manual followup: 1e+14 Weekly agnostic cost: 087675993 Annual agnostic cost: 6559151612 Annual targeted cost: 69677455 aav5 spurbeck Relative abundance of 1 in 5e+11 Weekly reads to flag for manual followup: 5e+14 Weekly agnostic cost: 984939932 Annual agnostic cost: 07216876455 Annual targeted cost: 21650629 aav6 brinch Relative abundance of 1 in 3e+11 Weekly reads to flag for manual followup: 3e+14 Weekly agnostic cost: 049171918 Annual agnostic cost: 06556939713 Annual targeted cost: 19670819 aav6 crits_christoph Relative abundance of 1 in 4e+10 Weekly reads to flag for manual followup: 4e+13 Weekly agnostic cost: 38244929 Annual agnostic cost: 7588736323 Annual targeted cost: 2766209 aav6 rothman Relative abundance of 1 in 1e+11 Weekly reads to flag for manual followup: 1e+14 Weekly agnostic cost: 058006368 Annual agnostic cost: 5016331151 Annual targeted cost: 65048993 aav6 spurbeck Relative abundance of 1 in 6e+11 Weekly reads to flag for manual followup: 6e+14 Weekly agnostic cost: 621380674 Annual agnostic cost: 40311795052 Annual targeted cost: 20935385 bkv brinch Relative abundance of 1 in 2e+09 Weekly reads to flag for manual followup: 2e+12 Weekly agnostic cost: 5472140 Annual agnostic cost: 04551281 Annual targeted cost: 413654 bkv crits_christoph Relative abundance of 1 in 1e+09 Weekly reads to flag for manual followup: 1e+12 Weekly agnostic cost: 012045 Annual agnostic cost: 68626343 Annual targeted cost: 405879 bkv rothman Relative abundance of 1 in 9e+10 Weekly reads to flag for manual followup: 9e+13 Weekly agnostic cost: 22202207 Annual agnostic cost: 7554514786 Annual targeted cost: 12663544 bkv spurbeck Relative abundance of 1 in 1e+11 Weekly reads to flag for manual followup: 1e+14 Weekly agnostic cost: 86988855 Annual agnostic cost: 0923420449 Annual targeted cost: 22770261 cmv brinch Relative abundance of 1 in 4e+10 Weekly reads to flag for manual followup: 4e+13 Weekly agnostic cost: 88528156 Annual agnostic cost: 5003464103 Annual targeted cost: 5010392 cmv crits_christoph Relative abundance of 1 in 4e+10 Weekly reads to flag for manual followup: 4e+13 Weekly agnostic cost: 24296610 Annual agnostic cost: 6863423695 Annual targeted cost: 0590271 cmv rothman Relative abundance of 1 in 1e+11 Weekly reads to flag for manual followup: 1e+14 Weekly agnostic cost: 120631725 Annual agnostic cost: 8272849714 Annual targeted cost: 74818549 cmv spurbeck Relative abundance of 1 in 2e+11 Weekly reads to flag for manual followup: 2e+14 Weekly agnostic cost: 356634429 Annual agnostic cost: 0544990284 Annual targeted cost: 11634971 ebv brinch Relative abundance of 1 in 2e+10 Weekly reads to flag for manual followup: 2e+13 Weekly agnostic cost: 89564150 Annual agnostic cost: 857335795 Annual targeted cost: 9572007 ebv crits_christoph Relative abundance of 1 in 6e+10 Weekly reads to flag for manual followup: 6e+13 Weekly agnostic cost: 55449110 Annual agnostic cost: 3683353737 Annual targeted cost: 1050061 ebv rothman Relative abundance of 1 in 2e+11 Weekly reads to flag for manual followup: 2e+14 Weekly agnostic cost: 249278624 Annual agnostic cost: 4962488460 Annual targeted cost: 94887465 ebv spurbeck Relative abundance of 1 in 5e+11 Weekly reads to flag for manual followup: 5e+14 Weekly agnostic cost: 934047891 Annual agnostic cost: 04570490309 Annual targeted cost: 13711471 hbv brinch Relative abundance of 1 in 7e+07 Weekly reads to flag for manual followup: 7e+10 Weekly agnostic cost: 40915 Annual agnostic cost: 8127558 Annual targeted cost: 4383 hbv crits_christoph Relative abundance of 1 in 2e+08 Weekly reads to flag for manual followup: 2e+11 Weekly agnostic cost: 732654 Annual agnostic cost: 0098004 Annual targeted cost: 70294 hbv rothman Relative abundance of 1 in 2e+09 Weekly reads to flag for manual followup: 2e+12 Weekly agnostic cost: 5063498 Annual agnostic cost: 83301884 Annual targeted cost: 349906 hbv spurbeck Relative abundance of 1 in 7e+09 Weekly reads to flag for manual followup: 7e+12 Weekly agnostic cost: 8701800 Annual agnostic cost: 052493595 Annual targeted cost: 157481 hcv crits_christoph Relative abundance of 1 in 8e+08 Weekly reads to flag for manual followup: 8e+11 Weekly agnostic cost: 008033 Annual agnostic cost: 12417720 Annual targeted cost: 37253 hcv rothman Relative abundance of 1 in 4e+09 Weekly reads to flag for manual followup: 4e+12 Weekly agnostic cost: 2477087 Annual agnostic cost: 688808532 Annual targeted cost: 066426 hcv spurbeck Relative abundance of 1 in 2e+10 Weekly reads to flag for manual followup: 2e+13 Weekly agnostic cost: 23976844 Annual agnostic cost: 446795886 Annual targeted cost: 9340388 hiv crits_christoph Relative abundance of 1 in 7e+07 Weekly reads to flag for manual followup: 7e+10 Weekly agnostic cost: 57543 Annual agnostic cost: 8992261 Annual targeted cost: 6977 hiv rothman Relative abundance of 1 in 6e+08 Weekly reads to flag for manual followup: 6e+11 Weekly agnostic cost: 570265 Annual agnostic cost: 37653793 Annual targeted cost: 12961 hiv spurbeck Relative abundance of 1 in 2e+09 Weekly reads to flag for manual followup: 2e+12 Weekly agnostic cost: 6205134 Annual agnostic cost: 42666987 Annual targeted cost: 528001 hpv brinch Relative abundance of 1 in 3e+11 Weekly reads to flag for manual followup: 3e+14 Weekly agnostic cost: 333695030 Annual agnostic cost: 21352141542 Annual targeted cost: 64056425 hpv crits_christoph Relative abundance of 1 in 4e+10 Weekly reads to flag for manual followup: 4e+13 Weekly agnostic cost: 10821891 Annual agnostic cost: 6162738327 Annual targeted cost: 8488215 hpv rothman Relative abundance of 1 in 1e+11 Weekly reads to flag for manual followup: 1e+14 Weekly agnostic Weekly agnostic Weekly agnono Weekly agnostic Weekly agnost targeted cost: 85400573 hpv spurbeck Relative abundance of 1 in 5e+11 Wee Wee Wee Wee Wee Wee Wee Wee Wee Wee Weekly agnostic cost: 808812456 Annual agnostic cost: 98058247721 Annual targeted cost: 94174743 hsv_1 brinch Relative abundance of 1 in 6e+10 Weekly reads to flag for manual followup: 6e+13 Weekly agnostic cost: 53993691 Annual agnostic cost: 3607671955 Annual targeted cost: 0823016 hsv_1 crits_christoph Relative abundance of 1 in 4e+10 Weekly reads to flag for manual followup: 4e+13 Weekly agnostic cost: 32509498 Annual agnostic cost: 7290493913 Annual targeted cost: 1871482 hsv_1 rothman Relative abundance of 1 in 2e+09 Weekly reads to flag for manual followup: 2e+12 Weekly agnostic cost: 8753014 Annual agnostic cost: 75156741 Annual targeted cost: 925470 hsv_1 spurbeck Relative abundance of 1 in 3e+11 Weekly reads to flag for manual followup: 3e+14 Weekly agnostic cost: 172035764 Annual agnostic cost: 12945859705 Annual targeted cost: 38837579 hsv_2 brinch Relative abundance of 1 in 3e+10 Weekly reads to flag for manual followup: 3e+13 Weekly agnostic cost: 11333098 Annual agnostic cost: 0989321071 Annual targeted cost: 2967963 hsv_2 crits_christoph Relative abundance of 1 in 1e+10 Weekly reads to flag for manual followup: 1e+13 Weekly agnostic cost: 0147227 Annual agnostic cost: 687655797 Annual targeted cost: 4062967 hsv_2 rothman Relative abundance of 1 in 5e+10 Weekly reads to flag for manual followup: 5e+13 Weekly agnostic cost: 89888208 Annual agnostic cost: 0274186797 Annual targeted cost: 0822560 hsv_2 spurbeck Relative abundance of 1 in 1e+11 Weekly reads to flag for manual followup: 1e+14 Weekly agnostic cost: 126357294 Annual agnostic cost: 8570579301 Annual targeted cost: 75711738 influenza crits_christoph Relative abundance of 1 in 7e+04 Weekly reads to flag for manual followup: 7e+07 Weekly agnostic cost: 93 Annual agnostic cost: 0861 Annual targeted cost: 3 influenza rothman Relative abundance of 1 in 4e+06 Weekly reads to flag for manual followup: 4e+09 Weekly agnostic cost: 1415 Annual agnostic cost: 633575 Annual targeted cost: 901 influenza spurbeck Relative abundance of 1 in 4e+09 Weekly reads to flag for manual followup: 4e+12 Weekly agnostic cost: 4036388 Annual agnostic cost: 769892201 Annual targeted cost: 309677 influenza crits_christoph Relative abundance of 1 in 9e+04 Weekly reads to flag for manual followup: 9e+07 Weekly agnostic cost: 01 Annual agnostic cost: 6453 Annual targeted cost: 09 influenza rothman Relative abundance of 1 in 2e+06 Weekly reads to flag for manual followup: 2e+09 Weekly agnostic cost: 4301 Annual agnostic cost: 43669 Annual targeted cost: 231 influenza spurbeck Relative abundance of 1 in 1e+08 Weekly reads to flag for manual followup: 1e+11 Weekly agnostic cost: 73863 Annual agnostic cost: 0240892 Annual targeted cost: 20723 jcv brinch Relative abundance of 1 in 6e+08 Weekly reads to flag for manual followup: 6e+11 Weekly agnostic cost: 834074 Annual agnostic cost: 51371827 Annual targeted cost: 54115 jcv crits_christoph Relative abundance of 1 in 6e+08 Weekly reads to flag for manual followup: 6e+11 Weekly agnostic cost: 600613 Annual agnostic cost: 39231871 Annual targeted cost: 17696 jcv rothman Relative abundance of 1 in 2e+10 Weekly reads to flag for manual followup: 2e+13 Weekly agnostic cost: 33541350 Annual agnostic cost: 944150200 Annual targeted cost: 0832451 jcv spurbeck Relative abundance of 1 in 3e+10 Weekly reads to flag for manual followup: 3e+13 Weekly agnostic cost: 39636887 Annual agnostic cost: 2461118144 Annual targeted cost: 7383354 mcv brinch Relative abundance of 1 in 4e+09 Weekly reads to flag for manual followup: 4e+12 Weekly agnostic cost: 8857833 Annual agnostic cost: 500607291 Annual targeted cost: 501822 mcv crits_christoph Relative abundance of 1 in 6e+07 Weekly reads to flag for manual followup: 6e+10 Weekly agnostic cost: 17066 Annual agnostic cost: 6887413 Annual targeted cost: 0662 mcv rothman Relative abundance of 1 in 2e+11 Weekly reads to flag for manual followup: 2e+14 Weekly agnostic cost: 479471848 Annual agnostic cost: 6932536112 Annual targeted cost: 30797608 mcv spurbeck Relative abundance of 1 in 2e+11 Weekly reads to flag for manual followup: 2e+14 Weekly agnostic cost: 511442943 Annual agnostic cost: 8595033017 Annual targeted cost: 35785099 norovirus crits_christoph Relative abundance of 1 in 3e+05 Weekly reads to flag for manual followup: 3e+08 Weekly agnostic cost: 114 Annual agnostic cost: 09918 Annual targeted cost: 30 norovirus rothman Relative abundance of 1 in 8e+03 Weekly reads to flag for manual followup: 8e+06 Weekly agnostic cost: 6 Annual agnostic cost: 407 Annual targeted cost: 0 norovirus spurbeck Relative abundance of 1 in 6e+07 Weekly reads to flag for manual followup: 6e+10 Weekly agnostic cost: 14164 Annual agnostic cost: 6736524 Annual targeted cost: 0210 norovirus crits_christoph Relative abundance of 1 in 7e+05 Weekly reads to flag for manual followup: 7e+08 Weekly agnostic cost: 819 Annual agnostic cost: 02573 Annual targeted cost: 08 norovirus rothman Relative abundance of 1 in 1e+04 Weekly reads to flag for manual followup: 1e+07 Weekly agnostic cost: 3 Annual agnostic cost: 852 Annual targeted cost: 5 norovirus spurbeck Relative abundance of 1 in 4e+07 Weekly reads to flag for manual followup: 4e+10 Weekly agnostic cost: 26978 Annual agnostic cost: 7002853 Annual targeted cost: 1009 sars_cov_2 crits_christoph Relative abundance of 1 in 8e+06 Weekly reads to flag for manual followup: 8e+09 Weekly agnostic cost: 5981 Annual agnostic cost: 431019 Annual targeted cost: 0293 sars_cov_2 rothman Relative abundance of 1 in 2e+07 Weekly reads to flag for manual followup: 2e+10 Weekly agnostic cost: 53117 Annual agnostic cost: 962109 Annual targeted cost: 3886 sars_cov_2 spurbeck Relative abundance of 1 in 1e+10 Weekly reads to flag for manual followup: 1e+13 Weekly agnostic cost: 0695265 Annual agnostic cost: 716153804 Annual targeted cost: 4148461
This estimates sequencing depths and costs corresponding to the Example Application section in the report. Output: