ec91a85bc497e66df13512b853f913a9 *DESCRIPTION
e28a97d5505d6c6cd6f67b54cab3e5ae *NAMESPACE
c7edde0f48f11ac2b89f1dc894257380 *R/load_edge_assignment.R
f60c02fcc8dcc795989065b7220757e4 *R/load_edge_assignments.R
8e5de72c0e9caa17bff3c06c373e9efd *R/merge_edge_assignments.R
cc22a890aa28defaff903c28c9fdd70f *R/merge_edge_counts.R
57d9c952a02ed0de74471782b7c59d3c *R/plot_edge_assignment.R
ac8fb2ebce892b30df1355fd68d852a3 *R/plot_merged_assignment.R
ea98b5e1179e1e3679a9871d60bdd4a3 *README.md
a00aee2b7e1076f63e79d0ba8eee672a *inst/extdata/HMP_even/allReads-bwa.list.txt
ae57ee94db35d5280876ac0443069d94 *inst/extdata/HMP_even/allReads-diamond.list.txt
8350bb97e1bae0f0338543d090114e3f *inst/extdata/HMP_even/allReads-gottcha-genDB-b.list.txt
8f824d4f6cc73219770645b887b75239 *inst/extdata/HMP_even/allReads-gottcha-genDB-v.list.txt
666dd36e5b625089a17befdcc2ce59e1 *inst/extdata/HMP_even/allReads-gottcha-speDB-b.list.txt
65f9b7f628b9064a9b1d55d571d5187a *inst/extdata/HMP_even/allReads-gottcha-speDB-v.list.txt
5f4a5f12fe72e97c2d273288f6818f4c *inst/extdata/HMP_even/allReads-gottcha-strDB-v.list.txt
2335d1dfbeedfad3c7a2d416c4d7e6f8 *inst/extdata/HMP_even/allReads-gottcha2-speDB-b.list.txt
9e61db676f9724703bd08d628e31d884 *inst/extdata/HMP_even/allReads-kraken_mini.list.txt
67f4e9022d1d2d4fb6bdc7cd4ef1face *inst/extdata/HMP_even/allReads-metaphlan.list.txt
047a6ff0a58f95aa89030fb3d53984ed *inst/extdata/HMP_even/allReads-pangia.list.txt
9875e9f2abf604af31aa34395e394ef1 *inst/extdata/HMP_stagger/allReads-bwa.list.txt
f27a72ae75ae3ecffcb9c4a0035f3ada *inst/extdata/HMP_stagger/allReads-diamond.list.txt
388a21e7de3276862e0301a598700487 *inst/extdata/HMP_stagger/allReads-gottcha-genDB-b.list.txt
2b84191b7758b500c00d937d2383652b *inst/extdata/HMP_stagger/allReads-gottcha-genDB-v.list.txt
459fc7d60987f0b420681ffc73901ccd *inst/extdata/HMP_stagger/allReads-gottcha-speDB-b.list.txt
ea1a57e164a0e383506d6e76c7770d30 *inst/extdata/HMP_stagger/allReads-gottcha-speDB-v.list.txt
9deae46acd8c813c3071fdcd18cbefef *inst/extdata/HMP_stagger/allReads-gottcha-strDB-v.list.txt
90a5bc20e2a01bca9393ae8129b59ce3 *inst/extdata/HMP_stagger/allReads-gottcha2-speDB-b.list.txt
2bd902be5929bde2c91b26f9c5eb4928 *inst/extdata/HMP_stagger/allReads-kraken_mini.list.txt
c2e49f40ad0dea1030f62bfccf214c15 *inst/extdata/HMP_stagger/allReads-metaphlan.list.txt
da3da694586aca6c82472fab65856556 *inst/extdata/HMP_stagger/allReads-pangia.list.txt
d11780e676ac71570e31c1c80de7b309 *man/load_edge_assignment.Rd
eca2c6078d455f0150a8f1c34c9cc446 *man/load_edge_assignments.Rd
c8313454f2ce468121504d691e2dd3df *man/merge_edge_assignments.Rd
af5fce67bb6fb24289394a8219892453 *man/merge_edge_counts.Rd
fd7b140cc7fdb24e696f5d463e988883 *man/plot_edge_assignment.Rd
22257bc18950a77c4c850ea749a05689 *man/plot_merged_assignment.Rd
8cc3abe3ef42f275abaae30c45c28f57 *tests/test_data/100187/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
f3705b0eaa9995986ee864143b305a72 *tests/test_data/100187/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
d8d417122f7d1e4bd244afe4a7bc4dbc *tests/test_data/100187/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
6de8b6d01fa488c9bd97a053ce08b76d *tests/test_data/100197/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
34b2b92bed4456701370c11f6a4f40e1 *tests/test_data/100197/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
d709d2cc0b58c3e90491ab40c5e29447 *tests/test_data/100197/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
4e0e15cffb4c3bf81991a2f85c59c6a6 *tests/test_data/100198/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
978987e55e2dd3856a8449b2f0cdcd9c *tests/test_data/100198/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
6f19f8bde773935894c6402f46fa29d1 *tests/test_data/100198/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
6958ba552204eb3f1a708bdc93d86106 *tests/test_data/100204/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
71239f57abffa8f1eb9d0af3fc2780a1 *tests/test_data/100218/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
d3374d360a82f6301fd3c4f58e54cb9a *tests/test_data/100218/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
7b9602c33a4bc93125b8f41fdb40cc16 *tests/test_data/100218/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
0fec18f4a770019b5f98480346676178 *tests/test_data/100236/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
7b864e370a57cbd1b2a78bf362a8d67d *tests/test_data/100236/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
89e237f529259f7a667a78922befe3e1 *tests/test_data/100236/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
1d6b7961129f83b85836a89deb2dd0c7 *tests/test_data/100237/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
313e987ff729efec87acb03bb81c622e *tests/test_data/100237/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
a0dcc57c78fa6a191ce073ea35f3a671 *tests/test_data/100237/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
2afcff5d8a3358aeebf187893aaf54d5 *tests/test_data/100301/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
92832b4731d29aa6144e08ed3a593192 *tests/test_data/100301/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
77eecb1c00679768b0d1adcda0d56de3 *tests/test_data/100301/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
8139db5682ff7be70b2fbadba68c0277 *tests/test_data/100400/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
3f0ea8b20ac7dc21ba80d6f1b544d8ca *tests/test_data/100400/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
8b5e1b07d826fc436fa829c62afeea6c *tests/test_data/100400/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
1d343a320a47dca749271abe80cbcccb *tests/test_data/100404/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
69405bc29aea0c42a9e03b43809d63a2 *tests/test_data/100404/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
33e996417dc2bf2e2dff2f1ddda42087 *tests/test_data/100404/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
833a09df2fd6c69d02855ba5b48d0ab9 *tests/test_data/100455/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
e2269e58cd62f73dbc28aa84b1061701 *tests/test_data/100455/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
eea03d75560dbf417d41f6774e3c4f1d *tests/test_data/100455/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
262f908ce3c1cd3d3a9346e4703a1615 *tests/test_data/100456/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
f313b1698956650e31ea4e3a602a605e *tests/test_data/100456/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
f951ef776d68616ebea927b154d41e15 *tests/test_data/100456/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
7275b743cf019608c481d69010ac1cbb *tests/test_data/100477/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
a8ccf1100fa3cd5d48e2f377eeb07cb2 *tests/test_data/248/allReads-bwa.list.txt
a295e85545b6956be1a4ba14ce1688b4 *tests/test_data/248/allReads-gottcha-genDB-b.list.txt
e04a4d1255cd1200868867d1bee08910 *tests/test_data/248/allReads-gottcha-genDB-v.list.txt
122c3ab49393d1aa68eaa2e4799e5c18 *tests/test_data/248/allReads-gottcha-speDB-b.list.txt
0fbb21f924b8b417ef4ad27942264aa9 *tests/test_data/248/allReads-gottcha-speDB-v.list.txt
3ed7b2f100aa38c0da063f4c5c769fc2 *tests/test_data/248/allReads-gottcha-strDB-b.list.txt
c0a358c6272a59de8ee3b9db50b490d8 *tests/test_data/248/allReads-gottcha-strDB-v.list.txt
6c4e85b73e95cf4c36fe31116afa90ed *tests/test_data/248/allReads-kraken_mini.list.txt
0a664e1598f3408d6514b6230d016590 *tests/test_data/248/allReads-metaphlan.list.txt
8cf1d5964242aa701bddce9d803c5b8b *tests/test_data/248/retrieve.sh
a00aee2b7e1076f63e79d0ba8eee672a *tests/test_data/HMP_even/allReads-bwa.list.txt
ae57ee94db35d5280876ac0443069d94 *tests/test_data/HMP_even/allReads-diamond.list.txt
8350bb97e1bae0f0338543d090114e3f *tests/test_data/HMP_even/allReads-gottcha-genDB-b.list.txt
8f824d4f6cc73219770645b887b75239 *tests/test_data/HMP_even/allReads-gottcha-genDB-v.list.txt
666dd36e5b625089a17befdcc2ce59e1 *tests/test_data/HMP_even/allReads-gottcha-speDB-b.list.txt
65f9b7f628b9064a9b1d55d571d5187a *tests/test_data/HMP_even/allReads-gottcha-speDB-v.list.txt
5f4a5f12fe72e97c2d273288f6818f4c *tests/test_data/HMP_even/allReads-gottcha-strDB-v.list.txt
2335d1dfbeedfad3c7a2d416c4d7e6f8 *tests/test_data/HMP_even/allReads-gottcha2-speDB-b.list.txt
9e61db676f9724703bd08d628e31d884 *tests/test_data/HMP_even/allReads-kraken_mini.list.txt
67f4e9022d1d2d4fb6bdc7cd4ef1face *tests/test_data/HMP_even/allReads-metaphlan.list.txt
047a6ff0a58f95aa89030fb3d53984ed *tests/test_data/HMP_even/allReads-pangia.list.txt
9875e9f2abf604af31aa34395e394ef1 *tests/test_data/HMP_stagger/allReads-bwa.list.txt
f27a72ae75ae3ecffcb9c4a0035f3ada *tests/test_data/HMP_stagger/allReads-diamond.list.txt
388a21e7de3276862e0301a598700487 *tests/test_data/HMP_stagger/allReads-gottcha-genDB-b.list.txt
2b84191b7758b500c00d937d2383652b *tests/test_data/HMP_stagger/allReads-gottcha-genDB-v.list.txt
459fc7d60987f0b420681ffc73901ccd *tests/test_data/HMP_stagger/allReads-gottcha-speDB-b.list.txt
ea1a57e164a0e383506d6e76c7770d30 *tests/test_data/HMP_stagger/allReads-gottcha-speDB-v.list.txt
9deae46acd8c813c3071fdcd18cbefef *tests/test_data/HMP_stagger/allReads-gottcha-strDB-v.list.txt
90a5bc20e2a01bca9393ae8129b59ce3 *tests/test_data/HMP_stagger/allReads-gottcha2-speDB-b.list.txt
2bd902be5929bde2c91b26f9c5eb4928 *tests/test_data/HMP_stagger/allReads-kraken_mini.list.txt
c2e49f40ad0dea1030f62bfccf214c15 *tests/test_data/HMP_stagger/allReads-metaphlan.list.txt
da3da694586aca6c82472fab65856556 *tests/test_data/HMP_stagger/allReads-pangia.list.txt
fab85bbdc29442178d1bac7d63be43e7 *tests/test_data/SRR059928/SRR059928_gottcha2-speDB-refseq/allReads.summary.tsv
a0e82c7d75468184853f760af9f8c3f5 *tests/test_data/SRR061287/SRR061287_gottcha2-speDB-refseq/allReads.summary.tsv
e0dd4c430182774054ce23fafa5749e0 *tests/test_data/SRR062284/SRR062284_gottcha2-speDB-refseq/allReads.summary.tsv
6568ce60da399d374ee14718809fad58 *tests/test_data/SRR062419/SRR062419_gottcha2-speDB-refseq/allReads.summary.tsv
6b1df4c1ef99153dbf4a4f7ef3fc2130 *tests/test_data/SRR353621/SRR353621_gottcha2-speDB-refseq/allReads.summary.tsv
4b30d68dd376b4dead738ab66ad1dbdc *tests/test_data/SSputum-DNase-RAB/bwa/allReads-bwa.list.txt
96cae67de4b741b995f0aa7effe2c708 *tests/test_data/SSputum-DNase-RAB/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
1487c8fa6f031a6656b55db2207d67c2 *tests/test_data/SSputum-DNase-RAB/gottcha-genDB-v/allReads-gottcha-genDB-v.list.txt
d41d8cd98f00b204e9800998ecf8427e *tests/test_data/SSputum-DNase-RAB/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
f2679e6e5490cddd119e03b257f80dd6 *tests/test_data/SSputum-DNase-RAB/gottcha-speDB-v/allReads-gottcha-speDB-v.list.txt
e11dc9454bf7ed5904100785a3475431 *tests/test_data/SSputum-DNase-RAB/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
0cf583f6a71a47d79a4052896a83c62c *tests/test_data/SSputum-DNase-RAB/gottcha-strDB-v/allReads-gottcha-strDB-v.list.txt
9fdea34b35bd45c8a2de42f4b5bf0862 *tests/test_data/SSputum-DNase-RAB/kraken_mini/allReads-kraken_mini.list.txt
01c1d24de338c47c672b96d9e59c170e *tests/test_data/SSputum-DNase-RAB/metaphlan/allReads-metaphlan.list.txt
e3d00fcb5104b02b1bc93744a6aa4085 *tests/test_data/SSputum-DNase-cDNA/bwa/allReads-bwa.list.txt
d41d8cd98f00b204e9800998ecf8427e *tests/test_data/SSputum-DNase-cDNA/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
1dfef8495a992be297f974383078fc00 *tests/test_data/SSputum-DNase-cDNA/gottcha-genDB-v/allReads-gottcha-genDB-v.list.txt
1e8e06b69e11593bc6b733057adbdf2e *tests/test_data/SSputum-DNase-cDNA/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
ed8f328efbcb35a476fdb7fcf417b11e *tests/test_data/SSputum-DNase-cDNA/gottcha-speDB-v/allReads-gottcha-speDB-v.list.txt
bb046973d5f7e6b112b5cc5c723a841c *tests/test_data/SSputum-DNase-cDNA/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
3eacb9f3b7e4525119ec208c22dc5b21 *tests/test_data/SSputum-DNase-cDNA/gottcha-strDB-v/allReads-gottcha-strDB-v.list.txt
0e398a50eb7a7dc23753bb1e47341fa2 *tests/test_data/SSputum-DNase-cDNA/kraken_mini/allReads-kraken_mini.list.txt
a6c4e12d086819898fa6b526fec81898 *tests/test_data/SSputum-DNase-cDNA/metaphlan/allReads-metaphlan.list.txt
f77fdb985ad4b031e6ef8c0f29653239 *tests/test_data/SSputum-dil-DNase-RAB/bwa/allReads-bwa.list.txt
96983eae31d0a8698238d4b835445ad2 *tests/test_data/SSputum-dil-DNase-RAB/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
7e5c31fc6f3e871aab4ea761d0f27b70 *tests/test_data/SSputum-dil-DNase-RAB/gottcha-genDB-v/allReads-gottcha-genDB-v.list.txt
65ca10a0b2d9e35ecd392028cbf5fec0 *tests/test_data/SSputum-dil-DNase-RAB/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
9d9ac2dfa04bffce0aaf5a978899ec14 *tests/test_data/SSputum-dil-DNase-RAB/gottcha-speDB-v/allReads-gottcha-speDB-v.list.txt
cb220f2323191d68ebc7949f9245ccf9 *tests/test_data/SSputum-dil-DNase-RAB/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
6aa93c2cbbf0c939ad34db70498eec12 *tests/test_data/SSputum-dil-DNase-RAB/gottcha-strDB-v/allReads-gottcha-strDB-v.list.txt
3eb86fa15788d86ac118926d3f74793d *tests/test_data/SSputum-dil-DNase-RAB/kraken_mini/allReads-kraken_mini.list.txt
01c1d24de338c47c672b96d9e59c170e *tests/test_data/SSputum-dil-DNase-RAB/metaphlan/allReads-metaphlan.list.txt
c6e945599eab3f93f309f9a1a7216376 *tests/test_data/SSputum-dil-DNase-cDNA/bwa/allReads-bwa.list.txt
ce8f38049440be43dcae8c8b7f53598b *tests/test_data/SSputum-dil-DNase-cDNA/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
6927f278a68a2b4f25263e600aed3661 *tests/test_data/SSputum-dil-DNase-cDNA/gottcha-genDB-v/allReads-gottcha-genDB-v.list.txt
0d7faee5f73ea3f5e21f8f3d64ebab52 *tests/test_data/SSputum-dil-DNase-cDNA/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
754087bdc1094711bff18799666c3c10 *tests/test_data/SSputum-dil-DNase-cDNA/gottcha-speDB-v/allReads-gottcha-speDB-v.list.txt
b2cdb94b19d2a015153b7093550627ce *tests/test_data/SSputum-dil-DNase-cDNA/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
d415791d1c01f0beec16b42660454718 *tests/test_data/SSputum-dil-DNase-cDNA/gottcha-strDB-v/allReads-gottcha-strDB-v.list.txt
15613e8e444b051d0c702f1d4b50add7 *tests/test_data/SSputum-dil-DNase-cDNA/kraken_mini/allReads-kraken_mini.list.txt
f322153aea21e74efe393448c33686c9 *tests/test_data/SSputum-dil-DNase-cDNA/metaphlan/allReads-metaphlan.list.txt
b92500e8c8d619a68b059a1369c7bb10 *tests/test_data/SSputum-dil-no-RAB/bwa/allReads-bwa.list.txt
cd40b6e1a6685b73b144d0f1ccda6b25 *tests/test_data/SSputum-dil-no-RAB/gottcha-genDB-b/allReads-gottcha-genDB-b.list.txt
0dbd4ba73937df0258a26d0224bdf224 *tests/test_data/SSputum-dil-no-RAB/gottcha-genDB-v/allReads-gottcha-genDB-v.list.txt
1d4bc7cba1ac3d3db8eaa61e1c571927 *tests/test_data/SSputum-dil-no-RAB/gottcha-speDB-b/allReads-gottcha-speDB-b.list.txt
4e07257542ca45ebbe9316530a87320d *tests/test_data/SSputum-dil-no-RAB/gottcha-speDB-v/allReads-gottcha-speDB-v.list.txt
6204744cd98ac4a7f0598e68ffef2c73 *tests/test_data/SSputum-dil-no-RAB/gottcha-strDB-b/allReads-gottcha-strDB-b.list.txt
d3189b2bfa06e6c840f919371b966c17 *tests/test_data/SSputum-dil-no-RAB/gottcha-strDB-v/allReads-gottcha-strDB-v.list.txt
11c1d874f44f8cb7d2626e5750830d1d *tests/test_data/SSputum-dil-no-RAB/kraken_mini/allReads-kraken_mini.list.txt
8859d232d24af965aec96ea19b9a44e2 *tests/test_data/SSputum-dil-no-RAB/metaphlan/allReads-metaphlan.list.txt
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