c2888d77253f26c35f0bb831f92d6b8c *DESCRIPTION
c6f8385f71cebb6103558116db6e68ec *NAMESPACE
e1fc7f1baf30a8e8bd95e1cb60f114f7 *R/RcppExports.R
9571feb754df73c2ea3467e64c276366 *R/bclust.R
35c3e45a005d1718490208b27bab9d9d *R/bdist.R
463607095906115d9e3034f0df7a6d88 *R/binomix.R
5a67077d23f7a774eab0be87f39a90ff *R/blasting.R
e8c8c9c3e9da17bcda83d8cf1b1d719c *R/domainclust.R
272d84b06b907ce44e9c6f4881ce1bcb *R/entrez.R
788b6d4df51f33b4ee175e70abbbed41 *R/extern.R
838b6f5863293178a0c6454b1b731611 *R/genomedistances.R
062b3f10b36469d9beaebea4d23a9c67 *R/gff.R
bf5e009d24dfe8bc0ab5019d725f5799 *R/hmmer3.R
c8930053dde629ddb1ae25f933e21609 *R/micropan.R
99a032795b51ba63a2601fa19f8940e5 *R/mpneumoniae.R
30ce41aa6c8ca1f1ab9f4f1a19c521bf *R/orfs.R
cb91311c6ca80ac9484b8e63e9e4db5e *R/panmat.R
ad300247505c6264283a452d974d053c *R/panpca.R
fd937caf98487aa2d8a8e288942c0474 *R/panprep.R
d6b4a97332cf608fc85f0ab26ff818e4 *R/powerlaw.R
42095cfb40c244f2c7e7dcdfefa76077 *R/prodigal.R
324236314cd10842f855ad81c7a07574 *R/rarefaction.R
9e4e08023ca29cfc4e148fafb249bcac *R/ssu.R
71f2e8bcf6b861f7f38670da50b67758 *R/trees.R
eab85e8c1b73f2181a30b1877fde433f *R/xz.R
99ec55f966fc97cb7116f4a0eebe0c6e *build/vignette.rds
27e0d62c48e8d2a8e40a9cfdd7d7206e *data/Mpneumoniae.blast.clustering.rda
e411aa6408d2764c771593ee17ce4165 *data/Mpneumoniae.blast.distances.rda
21830d542f21b4e0d8a0566916d05cdd *data/Mpneumoniae.blast.panmat.rda
c4905290d50f478ba1842be49beeb039 *data/Mpneumoniae.domain.clustering.rda
274462f6dd8950d48b7a0f51f5cc86ca *data/Mpneumoniae.domain.panmat.rda
f40eba95b68d2ea6f6dc54c9850a9c39 *data/Mpneumoniae.table.rda
ef5297bc2b6bd88bf4a4bb08b87a5789 *demo/00Index
458b872866b7ece001e3f41115e3f4e0 *demo/casestudy.R
053dce0541d8ecd2f174ba2e67f087b5 *inst/doc/casestudy.pdf
995078ee1a01bf3fd747bc76e1052dd6 *inst/doc/vignette.R
28363464325c06426e7a777204fcf55c *inst/doc/vignette.Rnw
959e9b4a8c73a3c5c4a2373502be7358 *inst/doc/vignette.pdf
89f3fd6ac40942fe6044947a37f619ef *inst/extdata/Example.gff.xz
6c4150b836bf1b8f3863efbeeb27b97f *inst/extdata/Example_genome.fasta.xz
5694866a586d92c108461974f7566f77 *inst/extdata/Example_proteins.fasta.xz
c70f353b00a8ff9ccb95acbbbf0cd49b *inst/extdata/Example_proteins_GID1.fasta.xz
3aac3b80f281853801454ad9e56333d9 *inst/extdata/Example_proteins_GID2.fasta.xz
da0c5cf63ae7020aea4d361cef5e2fd0 *inst/extdata/Example_proteins_GID3.fasta.xz
e70a125a9e2b41ba8b8892c187988006 *inst/extdata/GID1_vs_GID1.txt.xz
dbba3ea0dcfa2bb146794d9d56b465ab *inst/extdata/GID1_vs_GID2.txt.xz
ad360b069de97eabba0994a2397a6d69 *inst/extdata/GID1_vs_GID3.txt.xz
14e8661209f8f33422a6dbe5970cd44a *inst/extdata/GID1_vs_Pfam-A.hmm.txt.xz
fb316bc6a32901bbf3bf4e83adeaf04d *inst/extdata/GID2_vs_GID1.txt.xz
fd194ed06a545a1c4736de22feb4274c *inst/extdata/GID2_vs_GID2.txt.xz
c4cdc13d5377240d750a6e149ea53dde *inst/extdata/GID2_vs_GID3.txt.xz
faa7831c027058a73afef624eb93c37e *inst/extdata/GID2_vs_Pfam-A.hmm.txt.xz
a61d57506d6b2bee16184bc0d0eb225d *inst/extdata/GID3_vs_GID1.txt.xz
97b55b99c7bcc207e82e4ad0b57024fb *inst/extdata/GID3_vs_GID2.txt.xz
61aa5d79b695afa2c083e87487a6d971 *inst/extdata/GID3_vs_GID3.txt.xz
dd81e211d6cbb70a135b68ade61135ec *inst/extdata/GID3_vs_Pfam-A.hmm.txt.xz
c7eb733644b2f865e726e134a75d35e4 *inst/extdata/Mpneumoniae.txt.xz
457fa428f464d6aaf3f3479a9c36026e *inst/extdata/microfam.hmm.h3f.xz
df4b4d047d1cac87cf1132f841156a4c *inst/extdata/microfam.hmm.h3i.xz
d7345baff5b0a0018d639896d29627d7 *inst/extdata/microfam.hmm.h3m.xz
47878819e52a37b6f497b3e9b7f3c7f1 *inst/extdata/microfam.hmm.h3p.xz
2b13fe644a7c65ffbbfdbe13dd0ddde8 *man/bClust.Rd
a82a3607e44e69514c49784598d698d1 *man/bDist.Rd
612ac4f56c8b392adec9c3605a858da4 *man/barrnap.Rd
342544ec167306df554ceb5967eddf4a *man/binomixEstimate.Rd
c257e969288820abc68aae4a6606166a *man/blastAllAll.Rd
217eb81eff7b1e66daf00a598d2c7464 *man/chao.Rd
7f50c33cb3793897280a4aca1152228e *man/dClust.Rd
d7adb6bba31dcde14cc55b2d10020615 *man/distJaccard.Rd
5f60b5d9ec5ce0ae51b4b0156391c0d8 *man/distManhattan.Rd
eb272b150aef573c55623838af90d977 *man/entrezDownload.Rd
357b77eb55bcf3a01b4e8dc6ad44045c *man/findOrfs.Rd
295c0e80bdeea0427efb2eb893bc307c *man/fluidity.Rd
ad075a68e17cd5067d672fe046626a8a *man/geneWeights.Rd
7a3eabcb7d7d85c38459162a36179174 *man/generic.Binomix.Rd
a9d53e2e2cbf77d7e8f6bea177f84985 *man/generic.Panmat.Rd
e4d8aec752fbd4275d7d8732f718bb4f *man/generic.Panpca.Rd
70c5a9fd4feb772832a7699f6225d9b9 *man/generic.Pantree.Rd
c68ddbc6d7f84cf146c11cb0278cc136 *man/generic.Rarefac.Rd
286aab04d84b519c0a45e56498c4eeeb *man/getAccessions.Rd
81a8fe9d1af90048fc879fc9d6c49864 *man/gff2fasta.Rd
d334e4bdfb21df5582324333c804470f *man/gffSignature.Rd
ca792b079c81d2b8fb5d32edf89bc9ea *man/heaps.Rd
d55446b4773a8ea2ffe845499b22dbcf *man/hmmerCleanOverlap.Rd
29c81ca1d3ad10ed7bae1c0611085cf2 *man/hmmerScan.Rd
c3b7612b46b9d32c49c4672a9e9c76ea *man/isOrtholog.Rd
fd5a17d4cb3e2855655e42234b48cda5 *man/lorfs.Rd
2a82c2d3c94c54ccdf7ff30eff8edccf *man/micropan.Rd
1e28fb255c52d07206572a3a863b4347 *man/mpneumoniae.Rd
84082e125723427805e9aeaf0f6130c9 *man/orfLength.Rd
eb3a5d5235783b705095660aa3acec44 *man/panMatrix.Rd
ba3757abae62b308b89c6668f5c27952 *man/panPrep.Rd
faf24b645a6eabb4888d3d8361fbade7 *man/panTree.Rd
3e8ad7d6ba5bae70343349bfbd255a4b *man/panpca.Rd
f50a6916a92719da9109bfb280409975 *man/prodigal.Rd
8e3bccb81326f84e831b678de364aa10 *man/rarefaction.Rd
0797b4c2b8f5549ba59568320f68cddb *man/readBlastTable.Rd
56880f3caee63285adca66c963fb474a *man/readGFF.Rd
ee352e2e6e7d395f2ce80be20281977f *man/readHmmer.Rd
f391cd91a973eebfb4491c7137330da0 *man/scores.loadings.Rd
d379499d737ff425f3953efdea1b3085 *man/xz.Rd
76d09ecc88b623fd0e3cf9aa6c290e6b *src/ORF_index.cpp
be985b53e38d59978180609095678d49 *src/RcppExports.cpp
1a23b5e52660d7a13913df07e8876fe0 *src/extractORF.cpp
28363464325c06426e7a777204fcf55c *vignettes/vignette.Rnw
