3624c242a9fecf60aee4e4f31430a388 *DESCRIPTION
7217e2e87643c9f2970098660c2dfc85 *NAMESPACE
5cea621f84264a96659be3a816595d81 *R/arabidopsisThalianaRefseq.R
901d1bd7c960a15110f6c4b723ffa1b0 *R/blastAnalysis.R
d58766a6fb2406a1da9c2ce4588f37a8 *R/blastAnnotate.R
4b7b8b84d020f60f325e842c39d3e56d *R/collapseSeqs.R
adf79e56ac84ccfabca4ff3618dfb5c9 *R/filterWildcards.R
2086aaae997cad3c012756740a83033b *R/getPackSeqs.R
5df6eb8b27829adeb48d1ba57dfaf61e *R/getPacksFromCsv.R
178e4b681a98b5148718f288156dc591 *R/getPacksFromFasta.R
16b6e1ba7791661ddf18f20da79509ad *R/getPacksFromGRanges.R
8ddab58d669d050e23e1bf063fa0a2ed *R/getTsds.R
a39c5a2dc2ba77979db508e460cfc94f *R/identifyPotentialPackElements.R
bb8ce0bc8a32980cb5cf7a226be3cec2 *R/identifyTirMatches.R
56c16e997af6fb5caffe0910cddb3324 *R/makeBlastDb.R
4b8a81a283d0ec17e21a4afa2a822a1c *R/packAlign.R
4b78ec4469bb9f7fc3c597aaae12fc54 *R/packBlast.R
1ef3d691d68f214138a4881fe2065008 *R/packClust.R
d747a735fe6028114a806d6f4a80e65e *R/packFinder.R
03cc6223de1665004b9f3390d89573b7 *R/packMatches.R
3d3b11c2c2feee6555ee4385da4468e7 *R/packSearch.R
8ef23c347f92487e856c228c26eab8e2 *R/packsToCsv.R
4e2dfcc96f3464cf038605d0b31b17cf *R/packsToFasta.R
33e7653b334285ef1e8813a1da6eec00 *R/packsToGRanges.R
aa9fd55181327acfd2dbcd1e9ef68baf *R/readBlast.R
704371f123823b18ff41a3427a30cd31 *R/readUc.R
8cb34ee037267550525f4cbf32723ff1 *R/tirClust.R
b8f0d2f6e8443f62fc16b4d98fc8d2c1 *README.md
4f55631b2ff40a123621414b6b253039 *build/vignette.rds
d195a0d8b0635ad3e02890c37f08d8ec *data/arabidopsisThalianaRefseq.rda
7c10231018ee618e9321552c9774b89c *data/packMatches.rda
c588c3a3fae5c432efd5269591d347dd *inst/CITATION
075e75b6c198869354320762b2113772 *inst/NEWS
38e9bcc598b6b4f02c009eb7a842c1c3 *inst/doc/packFinder.R
10bccdb7569877a30b0fa802e2c2fb51 *inst/doc/packFinder.Rmd
1459ac497294e1f40b7fd6dd457c381f *inst/doc/packFinder.html
cd94aa5a1fc1a44212132b4f2ebc440b *inst/extdata/packMatches.blast6out
18bd0b7c6a73f9ac12ed4817a2b7cd63 *inst/extdata/packMatches.csv
37d897eb070862e4f8eba251eace54e1 *inst/extdata/packMatches.fasta
8ef1c9cbbb2ddf3e20a4e3794e28447f *inst/extdata/packMatches.uc
5e79a916b35847557b5df41a26a86982 *inst/packFinder_hex.png
d6a37a19c5ca8dfbf1fcbf8ed222267b *inst/scripts/blast6out.R
cd61f0bbdb8981a59cf23c14421aab34 *inst/scripts/csv.R
494a7ab5751dfdd054c0e3fc79f4a7e4 *inst/scripts/fasta.R
1b89f96f8728abce4ca2cd853b349131 *inst/scripts/uc.R
98a00ee2d53a07ecd8421ebaf2563783 *man/arabidopsisThalianaRefseq.Rd
4f4e65d82b71fd68534e59966a8ced5d *man/blastAnalysis.Rd
62b6baf7e09dc28d9b22ddb31f931e73 *man/blastAnnotate.Rd
7e08a5e5108115311b581180941b4cc6 *man/collapseSeqs.Rd
c6f682e34a28dcf6dc1d844c150b9d26 *man/filterWildcards.Rd
a21bc690b9b1a34c4df08b6a7d78fb3e *man/getPackSeqs.Rd
2a4c695bcdd3cea59f482016bb964ace *man/getPacksFromCsv.Rd
82bfcb41a7f8cb511ca97084dc0ec576 *man/getPacksFromFasta.Rd
a274a61fcb5ffab704db4f5a469f4811 *man/getPacksFromGRanges.Rd
5f0bd2064ef210d41997c66049eec68f *man/getTsds.Rd
4525a3b0364d06eea21e792cb00e0fd2 *man/identifyPotentialPackElements.Rd
b4f088ba9b51dbfb1cd039c7060e0b8e *man/identifyTirMatches.Rd
f01e40afad6e146115164bee4e534bd2 *man/makeBlastDb.Rd
2f82b3f1f18999c1e172e9a37e69d73f *man/packAlign.Rd
869c2110c3079f3bfaebef03fee5cfae *man/packBlast.Rd
cf2d3bc7b92d7c9653517be821a041b9 *man/packClust.Rd
5f82b9139597400925400f5d7bb59475 *man/packFinder.Rd
c8330a4556a5d05019b606cb44beed42 *man/packMatches.Rd
e83b17fcf470b996c245a8cbc5c9d229 *man/packSearch.Rd
110b5507fdf024b120aa5e89403e100b *man/packsToCsv.Rd
096c0eaba927155dfc0f42e8db155a6b *man/packsToFasta.Rd
5448280acd2df9b1ee1850d377cd84cd *man/packsToGRanges.Rd
5b79b058cde496ff3db64c5fb0bb59bf *man/readBlast.Rd
61262417f7c9b2f925bf9d0c79204b69 *man/readUc.Rd
b7015ac6b3a3f0dbf2a0f06e375fe76d *man/tirClust.Rd
1dc95f050f1ef497be066b088a762918 *tests/testthat.R
fd58e892e1ee4a532773bde2f3b0f047 *tests/testthat/data-r/consensusSeqs.rda
8f3c0a63f3bb2db631720d96447df22a *tests/testthat/data-raw/alignOutput.uc
cd94aa5a1fc1a44212132b4f2ebc440b *tests/testthat/data-raw/clustOutput.blast6out
8ef1c9cbbb2ddf3e20a4e3794e28447f *tests/testthat/data-raw/clustOutput.uc
f8d07b4e949939cb54e1874bff1c5192 *tests/testthat/test_collapsed.R
9500fd859a35ce002ccbc8361ce1202a *tests/testthat/test_convert.R
58b33fe85754a6c1ddcb4d08538b75c0 *tests/testthat/test_data.R
f6057e9d85a3e5d6102d01b2e1300710 *tests/testthat/test_packSearch.R
530249cec1ff55f3eb981da02724eacc *tests/testthat/test_read.R
52edca51ad14e856712f15da600e5f65 *tests/testthat/test_tirClust.R
10bccdb7569877a30b0fa802e2c2fb51 *vignettes/packFinder.Rmd
a675bf97bc1d2103044a26218c435321 *vignettes/tirSeq.jpg
