a65e1e84d54df41daacda824a79e6345 *DESCRIPTION
94826a47b450fd7173a92beb72664dc3 *NAMESPACE
a492484c01e95e6d4723ad31b10e671f *R/RcppExports.R
5272b9f68d9c2fb17707f75fef7ef68c *R/crosses.R
6c3e1ea379b065a9d2010bc34c9e64d8 *R/dataproc.R
43e05a6c40058c300c87c5d0f6d14455 *R/datatools.R
dc880307d537b9c9b72874684461d706 *R/diversity.R
7ce2551187d261afb61679269dceafc3 *R/docdata.R
aa15a1051bb4e38152fbdb906b938bdc *R/filters.R
8d235fad5ece2fcf3e44cd9785d34901 *R/infoanalysis.R
953bc3aca08cbc15da6a5604f19d5558 *R/input.R
8d2d2f79a0a428beb0f794082db3cf34 *R/kmers.R
b0e5bb62e8c967645939ac26565f8fdf *R/measures.R
f29f5cddfe3ab5afebd426d69233010f *R/mitcr.R
f1a496dd313f80133fe60a3f7fea635a *R/plots.R
de42b2dd0a0dd48435447c054d48767f *R/segments.R
e1e4e9fcb9d398668ffdcae0efb8d39f *R/shared.R
19f5791187fee653b336b878b11ff013 *R/spectrum.R
ba2b5bfa4dc796f39c639fe63b9386cb *R/stats.R
774c3b5e525ef0dd44aab4dc2a334d17 *R/strtools.R
c54e5946c38fe3ed005235f8b9e9da1c *build/vignette.rds
89d6d3f555bed92c5ed36af98b04c7a4 *data/beta.prob.rda
4d9440071c98aae99e2ab606b6937b98 *data/datalist
e8b5fa68587985dfcabed1d11fb69a9f *data/human.alphabets.rda
abb4660e8bfebc115ad4f237589f1567 *data/mouse.alphabets.rda
cf2088a88997923cc775d50024f53b88 *data/segments.rda
c2b8052c95095af33344e99139b56106 *data/twa.rda
de9bc89e695e977f4f3bcbf7c70dbc8d *data/twb.rda
64738eb1939ce8d5e468cb42468db0f9 *inst/CITATION
9d91442b41ce56e71e01266500a95838 *inst/crossanalysis.report.Rmd
ad72dbd760ed268f512e16efa2064b92 *inst/doc/tcrvignette.R
69195fc49656a123e8a64360fdb3370e *inst/doc/tcrvignette.Rnw
6c72b8c8b1e6dd73f83031eebd3c6772 *inst/doc/tcrvignette.pdf
e26ef75e50ef9a525d1c9b0dd80b000a *inst/library.report.Rmd
f1bdeec4220e333bbb90ceae463a27a6 *man/AA_TABLE.Rd
29a7c271bb4ed9b78a4470a9fc8e8692 *man/apply.symm.Rd
f3b2a25684ea691e3fdceee148e703b5 *man/assymetry.Rd
d13d740754ce0e5d294778a43a7c2961 *man/barcodes.to.reads.Rd
d18c2579e7bc7a420fc4b98ef0d7ea39 *man/beta.prob.Rd
d7616e262bbedfb4ed80e9aafd9abd1e *man/bootstrap.tcr.Rd
c2c710ac37120db9b45f7c9b18b13196 *man/check.distribution.Rd
7e5a44a0f6515629e5a505ad037ef415 *man/codon.variants.Rd
b0195a5de4239be315e5c616996e3e5c *man/column.summary.Rd
9a9364d03a636da8c78c72abf6842310 *man/contamination.stats.Rd
1469b643181a2c7fb3d4afc47caae0ed *man/convergence.index.Rd
cf306ab5a672f394c8b8f1d5f2f6e63b *man/cosine.sharing.Rd
53b580cb03747bfd18ab92e8f89c044c *man/cosine.similarity.Rd
ab1c6cfcf8ec5c44af1d2836d59ef9cc *man/entropy.Rd
40aeee61458438f0f640cd41b074e521 *man/entropy.seg.Rd
9314849597d1fd0f3e2ef64b1f9f51ec *man/find.clonotypes.Rd
630ccbe7adbd621efc545ec1835790e2 *man/find.similar.sequences.Rd
83977b1d6d70cfc1bf08428e2b7512d2 *man/freq.segments.Rd
b75ea6015f889aa21aff1514c1f18500 *man/gc.content.Rd
d947eb2ad694d87aef5f0a379f68255e *man/generate.kmers.Rd
8637e2cf1746293263e12e8ef3017ba5 *man/generate.tcr.Rd
76a79edf6cb9d325499c5c8f95aca0ec *man/get.all.substrings.Rd
04816d8d883ac3a2ce7200ff1a15e7c0 *man/get.deletions.alpha.Rd
bd935c7018e2184d4bbdeaac634f49b0 *man/get.inframes.Rd
8892de54d5ccbca24b23bfb25878dc48 *man/get.kmers.Rd
aeaef009b45c416f15544c13f3446b25 *man/get.n.barcodes.Rd
bbd4e9866da9d6b747a87efa0afe1d25 *man/gibbs.sampler.Rd
f9e6e9bb1f44005133f6f05dc98965c0 *man/has.class.Rd
ae6559e3546b71fdaab35a3b1fa01b2b *man/intersect.Rd
509781cad12067544edb6c5d92f0f391 *man/inverse.simpson.Rd
66029553e786af8b217e3890c928db03 *man/kmer.profile.Rd
ee2fd43918ebf5a383d5ba3d9cb2d38a *man/kmer.table.Rd
0e5285b5994c8e2509518061a5574aeb *man/loglikelihood.Rd
a08708b9f868cda33c97b9a49a2fce1c *man/matrixdiagcopy.Rd
91064421996702517413b14aabb87991 *man/mitcr.stats.Rd
502b7c916e4d986847a5384192935576 *man/parse.file.Rd
d08140e833a18fbc93ef3c9fe9042278 *man/parse.file.list.Rd
2199b5cae49a50281ee764fb2ee5df37 *man/parse.folder.Rd
0c6ee12a10a3003125a2b2c8f1983337 *man/pca.segments.Rd
ee2e4b79e5d765a628300255886516bd *man/permutedf.Rd
55a629b50b1392a5f9a5efd48b95abec *man/rarefaction.Rd
4f6b2288ae0eecb2bc1bf7ab51d7803d *man/revcomp.Rd
ca427cafbd70b8a715307b411903a9f2 *man/reverse.string.Rd
1651936cc0ccdff7ae286ce7fbde16c8 *man/sample.clones.Rd
4ad24ed400e587798d226fa229146d86 *man/sample2D.Rd
64c5501578e4a5b4ea511befa8ff02bb *man/segments.alphabets.Rd
bf36cf9136613e6715b0995696d52370 *man/segments.list.Rd
b96414d4d2e5d00d8d473f4847fb5990 *man/set.pb.Rd
8e7325d533f54b7f38dfd1ab5a8c4ed1 *man/set.rank.Rd
cb8aa4f3a97998bbe56d197e7a01e6be *man/shared.repertoire.Rd
7cfa4cbe1cdf722f6d51218fc3e6f9c8 *man/spectratyping.Rd
8dd81ff3e799d41c270e351682f607e6 *man/startmitcr.Rd
3311ddf441176bfa341b296a65a8c899 *man/tailbound.proportion.Rd
8cd7a1ec6a52798cd46c87bf9ad93ed6 *man/top.cross.Rd
9cee87f441ddc3201e82a3ad68509b41 *man/top.fun.Rd
f894158de2ecf958f2563c45810c3329 *man/twinsdata.Rd
e994cad618731231483e99756d7979f1 *man/vis.V.usage.Rd
da3dc6f40e79602dbdba57b4b58217b3 *man/vis.clonal.dynamics.Rd
c819fe2157583e625fe8f5fdcad995cf *man/vis.count.len.Rd
4e524ab99229949475f9d39d2860837d *man/vis.group.boxplot.Rd
80d7661df6cd87ef8e21963fa81bb9e3 *man/vis.heatmap.Rd
1848e69a777e8766363eb51daf0b30dd *man/vis.kmer.histogram.Rd
9aedb52f7b90b77cae3db51c130ca89b *man/vis.number.count.Rd
951fe132603ff4e3578035ea94b2be32 *man/vis.pca.Rd
dc5388e9483eff2fb139811f4d4ecd5e *man/vis.radarlike.Rd
7455c0a0030628923667153480d9da3a *man/vis.rarefaction.Rd
f4bb94fd7c108467014182b04d7186f4 *man/vis.top.proportions.Rd
0f23410ab5ad86968e3ee1b7713f63a5 *src/Makevars
7bd7f519490a8efc01f17def91bdb310 *src/RcppExports.cpp
8a553b2fb838c974dd86da98b4d6264c *src/neighbour.search.cpp
69195fc49656a123e8a64360fdb3370e *vignettes/tcrvignette.Rnw
