b9cb64dc4aee1db7bf19b288ec9536ee *DESCRIPTION
3db2c8d381558f133789c2f4a03ed39a *NAMESPACE
2258ab3f92e2dfad10241800edf81fcb *R/bdist.R
b080a687d747b626510c98bd5acf5176 *R/binomix.R
969e8e1009f9c4b41945f67add2b017b *R/biostrings.R
2ba192a03a0d9e9352d60d167a15d7be *R/blasting.R
db9b41365adee7d3b1b5b25235f6f5c8 *R/domainclust.R
f1b87060c97c38ccb15503aa09f1f56e *R/eclust.R
ab3b63a65fbe0521230c117d3e87deae *R/entrez.R
7c48687555270f3928e933ddd20c3057 *R/fasta.R
c1887e914d0869fc22e154ea1eb1eb9b *R/genomedistances.R
6d8589cab87d3d2ba71f550ef26ac817 *R/hmmer3.R
0354b420303ca39b9cd39d806dd1909d *R/panmat.R
0bc41ed5ff29f93cffa24993533f0e6b *R/panpca.R
edbce4988f4da3718dbc2f7a45b5b5ac *R/panprep.R
6654a2f3133cedc426f7e443029e6928 *R/powerlaw.R
4f6c4ff91f21b317857bb0fb05be78a4 *R/prodigal.R
5d459bec29333727f74cc4854620afbb *R/rarefaction.R
43eaf799b767ad78053a62a53874ec0c *R/trees.R
d2b19227575cbf938e67b5925ba0f75d *R/utilityfun.R
4a76f0e85328452e08bed49bdad92dd0 *R/xz.R
60d83875a6c74daaf1094d85ec28b850 *build/vignette.rds
27e0d62c48e8d2a8e40a9cfdd7d7206e *data/Mpneumoniae.blast.clustering.RData
e411aa6408d2764c771593ee17ce4165 *data/Mpneumoniae.blast.distances.RData
21830d542f21b4e0d8a0566916d05cdd *data/Mpneumoniae.blast.panmat.RData
c4905290d50f478ba1842be49beeb039 *data/Mpneumoniae.domain.clustering.RData
274462f6dd8950d48b7a0f51f5cc86ca *data/Mpneumoniae.domain.panmat.RData
f40eba95b68d2ea6f6dc54c9850a9c39 *data/Mpneumoniae.table.RData
ef5297bc2b6bd88bf4a4bb08b87a5789 *demo/00Index
e5b675227d38ee65e06b93f02c4edb58 *demo/casestudy.R
cc7c2e7d1426dd65072f7fd22a05e41f *inst/doc/casestudy.pdf
86628b8529d7d33b4416812753050e2d *inst/doc/vignette.R
d7a0da32f316e05c0c5b3ad0e082c26e *inst/doc/vignette.Rnw
41a7f85c5de56801eefe896229bc5752 *inst/doc/vignette.pdf
c2e2aa54e893702b7fee7eaa3aea3b40 *inst/extdata/GID1_vs_GID1.txt.xz
b94b12afad2b52d72c957dda7fc97ace *inst/extdata/GID1_vs_GID2.txt.xz
410368087d60547a9be1b23a648094c8 *inst/extdata/GID1_vs_GID3.txt.xz
14e8661209f8f33422a6dbe5970cd44a *inst/extdata/GID1_vs_Pfam-A.hmm.txt.xz
baee34fdbe0e7f0998e97a926fc2dd59 *inst/extdata/GID2_vs_GID1.txt.xz
723884a3b39415b866e2b3bbd4fd50b1 *inst/extdata/GID2_vs_GID2.txt.xz
a24cede8e727934e09a8f8d9df9be040 *inst/extdata/GID2_vs_GID3.txt.xz
faa7831c027058a73afef624eb93c37e *inst/extdata/GID2_vs_Pfam-A.hmm.txt.xz
c387edc84233ada0c2a20a16071858ef *inst/extdata/GID3_vs_GID1.txt.xz
e03bf4297d83a460022067c6a22b9d4f *inst/extdata/GID3_vs_GID2.txt.xz
3f837092a169861c0799ef7115232f94 *inst/extdata/GID3_vs_GID3.txt.xz
dd81e211d6cbb70a135b68ade61135ec *inst/extdata/GID3_vs_Pfam-A.hmm.txt.xz
c7eb733644b2f865e726e134a75d35e4 *inst/extdata/Mpneumoniae.txt.xz
5fec602407bedb646d4dbfa0a89291b9 *inst/extdata/Mpneumoniae_309_GID2.fsa.xz
26c7f2c421ecf44da9df77c8d9219b21 *inst/extdata/Mpneumoniae_309_genome.fsa.xz
4da2e66131e11f857bb552efc01b415d *inst/extdata/Mpneumoniae_309_protein.fsa.xz
84cee4befdaa9d85d21bea47e5eadee8 *inst/extdata/Mpneumoniae_FH_GID3.fsa.xz
9e5e3c2c4b8107a48e052234cc69a45a *inst/extdata/Mpneumoniae_M129_GID1.fsa.xz
6e2129a8c0a7bb98208c15ae25e68e45 *inst/extdata/microfam0.hmm.h3f.xz
705117f4de57c93409b796d5ecf87040 *inst/extdata/microfam0.hmm.h3i.xz
a5e30f1cf0be0e6e345c6b2c5d8018ba *inst/extdata/microfam0.hmm.h3m.xz
7a030a4466834e1e33141b6a0e5506bd *inst/extdata/microfam0.hmm.h3p.xz
2484a3208ba81fcd8fc81be0872b8ad3 *man/bClust.Rd
18cce82bff51479cbf3ec4c75c4830ce *man/bDist.Rd
a207311e6e9600854ee8e4a404c834e7 *man/binomixEstimate.Rd
f19f3c1dcc39675f232feecf995a4d48 *man/binomixMachine.Rd
968de0b9c9fdb50b780ae4ba32b91fbb *man/blastAllAll.Rd
129759aaf911ede4de9844493d94377e *man/chao.Rd
504c8cad62aa4f9830f41e784ab8c0cc *man/dClust.Rd
9a30f55e2903957499d4d3f943219d54 *man/distJaccard.Rd
1be2aafac57c728421dbdf37124b7738 *man/distManhattan.Rd
35c15695aa4b5b652ca0bd05e8aac499 *man/entrezDownload.Rd
ef94a478955f04dff6c0097d6e701cd0 *man/fluidity.Rd
8b9b5d249861c197c81f18e7fcfa1bf7 *man/geneWeights.Rd
1f72e8e80eaca0bdbf58c01b64086f07 *man/getAccessions.Rd
b56ed7290a51165b916b839625a40912 *man/gregexpr.Rd
7f5fb9aede7f435ff008ece694e7880f *man/heaps.Rd
fa9c9d40125e12c8f05fd80206db21d5 *man/hmmerCleanOverlap.Rd
ebdd78dc250bb5e5f70af3af82c6e526 *man/hmmerScan.Rd
26345f209015a12b723f4f636ef6aa7c *man/isOrtholog.Rd
5520d15340efdf82e74906d6eb677a82 *man/micropan-package.Rd
9deba03e21ce4d1bf8aa18a32b673a2e *man/mpneumoniae.Rd
f78cb5727db82bc4c1a11306de917d8c *man/negTruncLogLike.Rd
f5297720a1a104fec796dab2326b0d60 *man/panMatrix.Rd
fe31343be6e43325354bc2ee1c0505c2 *man/panPrep.Rd
8ffb3ca3c6575a156cad2c9cc4965312 *man/panTree.Rd
e0e68ff32991ceda05661d2c79393553 *man/panpca.Rd
96727c72a54400c4504939fac7c1e264 *man/plot.Binomix.Rd
1364c3d2772d2ca9a3f6ca20d2dd72be *man/plot.Fasta.Rd
82d9a7463780eaa4b189606d65edcd23 *man/plot.Panmat.Rd
62cefbe1c9a79b80951a5900c7b05d00 *man/plot.Panpca.Rd
c68bb8f4a4d1d956e999049498e7bd0d *man/plot.Pantree.Rd
21c342e57f45bc905123f66dafe24227 *man/plot.Rarefac.Rd
b41660fe664033b84a2d11f7a3b70ee5 *man/plotScores.Rd
a725049375c7f460deefcdf244c7e0ec *man/prodigalPredict.Rd
770f768755a01151e92b256ea3932d1d *man/rarefaction.Rd
c7a02492f0e079f75bf75ccbedfafa27 *man/readBlastTable.Rd
df171adaec8db7b7d41fc848ec35d905 *man/readFasta.Rd
9d55ab6ab09a7d2a97755e518f2d6277 *man/readHmmer.Rd
163b4b167dff73fb6751255a4b6bd2ed *man/reverseComplement.Rd
44b6c619d61bc31194b95d20535526d1 *man/setLeafAttributes.Rd
9cf8667f5d6728dce4db8de5b09b6b31 *man/translate.Rd
cb0681f14be1ddc06969c388a097017b *man/xz.Rd
d7a0da32f316e05c0c5b3ad0e082c26e *vignettes/vignette.Rnw
