65cc5a4dfeec047da687a182fa06e905 *DESCRIPTION
4c0574943bc6cc27c380d0b3222d163a *NAMESPACE
02f2cadf229c9ca43229527d06e9ddb4 *R/adjacentPairs.R
1746b3451f2dd7658c6cde520360e42c *R/annotate.R
aa07aca93b8e88d3ac8e7c69dc3ba2e3 *R/contigInfo.R
80105b97d558b19c0beaaaa3e7772060 *R/contractMetab.R
c472a5fa80623cfbd50f15b7c6da00a2 *R/cpdname.R
f0f2b09da2e175229cd1df3bdc662fde *R/data.R
9aa127623ecef5ea177e61175ea99b53 *R/dbquery.R
08566352cb971f35a6be2a4e78ab1fa8 *R/drawTaxonomicTree.R
26448c718b057f6511ae9dce3493e434 *R/findHomology.R
5ca673f1b5dc5ac42c821f9481fd0be9 *R/findSeeds.R
1d5bc1005de34d9d40b71432fb8a8804 *R/graphgraph_cpd.R
b1f6c0920cbf92b35c6dc846cc51ea25 *R/grepgraph.R
bef8e20c563ce69f730af069bab0d1b3 *R/grepgraph_cpd.R
6d5d97d93cb564087c43a49c28a4174c *R/ig2ggplot.R
d3e41f304d7029073e4b7af885efe7da *R/igraph2gexf.R
22dcf1689fdd39c2ed6d50eb2635e131 *R/koname.R
e94f0bad93cc4fed122f03fec8b7c1bd *R/lca.R
f6dd72e6ea4cebe2cbf6375593cc3239 *R/listquery.R
dad797e482d5dd2f2400608539856b7c *R/makedata.frame.R
43d300875877636d98fc66c3c36b2164 *R/mapping.R
5ad61e15eead87a47790f3983c0c6c87 *R/mdrMapping.R
9a9b484926b535c070d66f070912b73d *R/path2kingdom.R
3252cb88b622f2ebe04703f78e2bdf78 *R/path2ko.R
a123ecb0b8f5418dde31bfa27ec7eb0e *R/pathways.R
fa14473f0faf21592924a5b2828d3917 *R/prettifyGraph.R
e17a60864f7e708e60404f9bb46cafe4 *R/setCypher.R
ae9b579bbc4a2bf0e212e9302b2bbe09 *R/setNodeProperties.R
bf47c98c126c2c75dc78e09feff3a3cc *R/sqlTaxid.R
607ce58f01b064595aba9f0b074a5bc5 *R/taxonname.R
2cf66d8b7b6e49e0bc408e52fd83364b *R/threshold.R
6147d1cebcd9e084db4b3c8944e13796 *R/trio.R
87a087609da4906531e06f84b24e44c4 *R/trio.local.R
e21a9c01746bcb93608985689d2dbe69 *R/trioAnalysis.R
d306a502f7698f4046ac8333962beff7 *R/utils.R
04f7bce79f85291337358b5f4d64bb25 *R/weird.R
79691372b65a2448d8c5557eff05c5cc *README.md
333251edb38a1fba71f999c51219de1f *data/nitrogenGraph.rda
2716a0ce79d383feaf0a3e5d61584723 *data/singleCopyGenes.rda
a552fe9996efab1be81662d5ad5252e6 *data/top500kos.rda
93282e2a82816f329f0102b5d7231d88 *inst/perl/createSQL.pl
d41d8cd98f00b204e9800998ecf8427e *inst/python/__init__.py
e705fae0754ed8b0ffd2085bf01eb7c8 *inst/python/simBlast
3d4c212bf652db486691a52f9169474e *inst/python/simBlast.py
b8d1b3e2680c65128d37c6bfe7bd5ca4 *inst/taxonomy/README
23158b351a1f0e34d792c8a154922399 *man/addContigProperty.Rd
2107d201c71542499715527881e251c3 *man/addKOProperty.Rd
be32f050f0aaab7134c6a36a4969c87c *man/adjacentPairs.Rd
c0624a8f0b9a748d30af17079ebd1e3b *man/allTrios.Rd
4fcd2aac5acfb224577aa9812b14b33c *man/annotateContigs.taxonomy.Rd
d646363328a2ab6c0ba941f3ff7497ce *man/blatting.Rd
d9da605bb56bafe2b7cacf350a4ca827 *man/buildE.Rd
4463fb8cc9293e05914db9692a2d70c5 *man/buildTree.Rd
b76865713122833f092f95e1c84111ed *man/categorize.Rd
f5291258261c6e98a539fb7efe46dfdd *man/connect.Rd
215ae73acaf5b5f758b740c490705c9d *man/contigInfo.Rd
e32c730e105357cc0c67832720f70ff4 *man/contigsSurvive.repeats.readNum.Rd
2cc36acdc3103bd83bb8dd21f4f6e678 *man/contigsSurvive.repeats.rpk.Rd
a35a68db66289dd40804f04cda6210a6 *man/contractMetab.Rd
7054e65f5df56dbab5e565195fdc09fe *man/cpdname.Rd
aef7320f90080e8279753335ca3c219e *man/dbquery.Rd
feb1833a5d53fd0a0a2c8ab508617e63 *man/dollarpipe.Rd
ee0f8652b0c3bbc8d7813d6c215c2ceb *man/doublepipe.Rd
98620f4d1f8111df32abab6e68dff2eb *man/dynPlots.Rd
cfd205525bc7be29a95a76d9d62a3050 *man/dynamicThreshold.Rd
775224453e87ed3d3e30bb55ed7e79f3 *man/extractFromPath.Rd
1b6d9e2c3b11a273b8abc8639d8cfff4 *man/findHomology.Rd
f09ca04e622552abff940e75028b3c30 *man/findK.Rd
b93ea9553cd9d51df5c3beef1863ffc7 *man/findNextKO.Rd
84da18077a02248506fcb2ad54ad8053 *man/findPerl.Rd
fb46774969c3de80c1e40ddd38e74f0d *man/findPython.Rd
d66b880f89f2c257e207f1c1fac1d0b5 *man/findSeeds.Rd
c16c2cf99ac479367ad473a60b99fe53 *man/findTrios.Rd
5efdce495824f4211e4521c86a26206b *man/findV.Rd
8f1bc942c0a4a74bbdf43eb4145d268e *man/findtype.Rd
4f1490fa676d0d14894ef885aaa13891 *man/grep.cDNA.Rd
07589622748cb5787310d1b38ba3caf4 *man/grepReads.Rd
a397592f72edfffcff8795b6b73939ca *man/grepgraph.Rd
38afec72d6872571fbe5d608c06fc9cc *man/grepgraph.cpd.Rd
1707e258df0aca3beaed0b328bbab033 *man/grepgraph_cpd.Rd
3716be952860561941b202c1c0bc0f68 *man/ig2ggplot.Rd
b467480c3c7f1609d8ac7bd60268a2c9 *man/igraph2gexf.Rd
684183cf71e757f22b0960c140bcc4fc *man/index.Rd
b611ab3d618c0236d87f7dc4117ffb12 *man/ko2path.Rd
c2378dbb0bdb382c22cc3d7f41dd2e38 *man/koname.Rd
892cd87a6ed18a56d623f46dcaa54c84 *man/ksCal.Rd
40a7c5682cc6a43ea4e56c28e3f1d269 *man/lca.Rd
e757509e7102e0b930e3e4ef1b935e02 *man/listquery.Rd
9006347089dcb1d74e51ca79d4a882f3 *man/lookupTable.Rd
e8fc96f999e0159c3a7fe0528c9998db *man/make.data.frame.Rd
7984565853d7e2005bcae379668f2162 *man/map.Rd
581041f0a3ede7b38781508d16e6f09f *man/mapContig.Rd
eade54f289ecb67491490d3a54658461 *man/mapReads2MDR.Rd
f283f7b4f56fdd5d818e557abc86cab9 *man/mappingInfo.Rd
d5d91f3f92155e53372614c4af85b249 *man/mdrRanges.Rd
c4f544087885108f31a39cff6b695e84 *man/nitrogenMetab.Rd
458f9c0de9c9c03e1a56221df21fe203 *man/path2kingdom.Rd
7fb711c55c7c328778c2f758b0d56de4 *man/path2ko.Rd
32e0d547afd49b26496263d04c2d9858 *man/pathways.Rd
a64a7ea44fcaa33c2d3ad0f7909cbc3e *man/pipe.Rd
ce8b2f74d9ee7cb891a94d51d1a81daa *man/plotClassification.Rd
9f0e168bf15d801d0e4d285581407a7f *man/prettifyGraph.Rd
2d4a2bcebe462b6f9e53d838cbf85882 *man/readStatusReader.Rd
5fd3d591a983b1cbf6d70b64f09befd5 *man/rolling.Rd
78c9d497bed5a2f557b705dfe5454f6c *man/scg.Rd
1e99ae21a9ade146f3ede6873445d548 *man/simpleThres.Rd
e1ff8fdc60540e01a71983c4066654bd *man/simulated.Rd
618488b38d518456cefed65fcca4a981 *man/surrNODES.Rd
f6a8603f6a138be8180b36edf6e5a8b8 *man/taxnam.sql.Rd
bf78024715907c8e55e77d6eaa805283 *man/taxname.Rd
8652869c1ac932cf5f0c58378ea1202a *man/top500kos.Rd
