ff6b94d3d7c4ee2d6bfbcc2638bc53fa *DESCRIPTION
cfd07bedbdc884f87da8602a90e66fbb *NAMESPACE
e96382dfc876ba6af180a79ed52adbda *NEWS
a492484c01e95e6d4723ad31b10e671f *R/RcppExports.R
2f202ff8eb85c1104cc542f7a4094d7e *R/crosses.R
c3431202645ae2ab89bd742718eec2e1 *R/dataproc.R
b9547ebcf4b6bf39b0fde67a9ab6bddf *R/datatools.R
10e77b80eff705be716271274000638d *R/diversity.R
30ce7d61f1979ffd6e2b1e6fa841978b *R/docdata.R
c6b8431ed697089699ace1137cbbd079 *R/filters.R
564ed39a060af3a697ad8c65d475464a *R/graph.R
b5c7f10658f1bdd28b3ade5f7de48822 *R/infoanalysis.R
be99c7dc61232cb6aa174ed396770a67 *R/input.R
8cd56ecf21eada77445525a03b143492 *R/kmers.R
da2023bc667f982773d6466873953e23 *R/measures.R
f29f5cddfe3ab5afebd426d69233010f *R/mitcr.R
44b05ab9c83cb7e26ed2831d227b52ad *R/plots.R
dbae4e266fb5ad1156c2227477716918 *R/segments.R
fed99ad78bfe399934dc99b839253418 *R/shared.R
c9b681fe4db921a041939679517d8b53 *R/spectrum.R
1400a09b2a1982fe203fda3f4d3a8278 *R/stats.R
efa533ba8e47b525a5ed3865f3e729f7 *R/strtools.R
d6dbf58a049b1cad452dd7e5391b9581 *README.md
c54e5946c38fe3ed005235f8b9e9da1c *build/vignette.rds
89d6d3f555bed92c5ed36af98b04c7a4 *data/beta.prob.rda
0b472b1afd448af9612974a7033a82bb *data/datalist
3e5199fd3d3acb248adfe09b59f39bfd *data/genesegments.rda
1966111ec6b661ce8832f2fe939b0649 *data/twa.rda
a8f9ed65694d7360957138d2b5114b36 *data/twb.rda
64738eb1939ce8d5e468cb42468db0f9 *inst/CITATION
7c5c0d2ee63bc11a27a5f7063fa3f5ae *inst/crossanalysis.report.Rmd
0e85fd06e30790d4612059246f04cdb0 *inst/doc/tcrvignette.R
b2c8d683c33a29bc8706fce81f389eaf *inst/doc/tcrvignette.Rnw
8c72b114a722abd6cebfee1620a47b83 *inst/doc/tcrvignette.pdf
147ad2b0aa69cfb445c3fa46aaad4f28 *inst/library.report.Rmd
caeb9b830859ee4ad8bde23868f64cfc *man/AA_TABLE.Rd
8dd6192d6fa2eb7e767bec5963cae369 *man/apply.symm.Rd
03170f098cf0edf18dd86e9d7313135c *man/assymetry.Rd
cdc56b933b8be8bf0f429e3d7a09906d *man/barcodes.to.reads.Rd
fcc5c41e7fa89fa4819aa908161dac99 *man/beta.prob.Rd
d323fc9bb693784ba72dbc12dd064d61 *man/bootstrap.tcr.Rd
5cba9f13f0cd3aed3281e793a35182f9 *man/check.distribution.Rd
5d227b1eff3c2f1d368a351c9745895a *man/clonal.space.homeostasis.Rd
2c21efc67d3c2ba58796fe17f9da7a65 *man/codon.variants.Rd
50c871aa353e0fd48aeee68b00abb973 *man/column.summary.Rd
9cd97cc0f7d3db5cec6e792eae2186fb *man/contamination.stats.Rd
b91a72f3fb88b39b5dccbba2ad637d49 *man/convergence.index.Rd
e059772098066ac91ae9b6674fb709ef *man/cosine.sharing.Rd
da77fe25940ac5845b20d8ddff93fb28 *man/cosine.similarity.Rd
b6ed7bb33a67d7b967fe2994b80954d6 *man/entropy.Rd
b75ca689ed6145cf4194fa2afc14cfa7 *man/entropy.seg.Rd
8372dd5bc9cc5bae2071ddcbd7c1440b *man/find.clonotypes.Rd
63135bcd402fa57eeb9e00491c4ea4be *man/find.similar.sequences.Rd
b48f2c46bdd71e550390df96a0eade45 *man/freq.segments.Rd
6cebec1c0994bfed09c871f77e196517 *man/gc.content.Rd
4614bd39a109a115fed779e67232d7a0 *man/generate.kmers.Rd
2503432b6d0fe042ce1c0f9102dae336 *man/generate.tcr.Rd
4ff8562a739cdc9b30875d9938904dbd *man/get.all.substrings.Rd
88cf99945b63e1537fbedf40bfce6d32 *man/get.deletions.alpha.Rd
cd7adb3faaaca4b34cd592c4431f5b29 *man/get.inframes.Rd
b937cee46760d11ba43d1b6e5b051c94 *man/get.kmers.Rd
1ff80b0d52738e1b8874ced343d123cc *man/get.n.barcodes.Rd
76e3daeb2df549ab3f402526788387a1 *man/gibbs.sampler.Rd
015f9edfa879afafd5dfff0b608f7f96 *man/group.clonotypes.Rd
3d0c24f6239ed7578fb468e7dcc2c62c *man/has.class.Rd
177256789b34f80872aa9b7d68c35cef *man/intersect.Rd
8acbc4b912a264ff6cbb98f4acd157e1 *man/inverse.simpson.Rd
a5d9b273787f0a3d9a68010bf32b6178 *man/kmer.profile.Rd
91d984748f832554a723f697d29478b6 *man/kmer.table.Rd
e6bea42ba6d591ca5bdde0ea4195fbf8 *man/loglikelihood.Rd
1e59fdddef717cbbca526f4de71be4ba *man/matrixdiagcopy.Rd
af92731189af7706e4c81497ffb6cdc3 *man/mitcr.stats.Rd
c9cec7ad357cefa7bdca2be2ff8ae8d2 *man/mutated.neighbours.Rd
ace0dccb49227a5f1b6a4179cd325665 *man/mutation.network.Rd
20bfd5bbb0ef01d56fdbad63e97a30a6 *man/parse.cloneset.Rd
376f4358efa740d46b58a9c203b3e226 *man/parse.folder.Rd
fd7719694f855e805168093a5228cdd3 *man/pca.segments.Rd
7cad0835e6a3941ccdd67943bb504ec8 *man/permutedf.Rd
bda9431cd5cb746e532e635fb0d8e766 *man/rarefaction.Rd
546acecf909b5015a99ce48e61c1003b *man/revcomp.Rd
d936a900f21191a29ab0ca01a36cb030 *man/reverse.string.Rd
a233e1b331bc0c471596673e5d60c1fe *man/sample.clones.Rd
5630efe09a42e385f24347b12e18772c *man/sample2D.Rd
522ad96617934f70e2003295f0c6268a *man/segments.alphabets.Rd
d220eab7075cac37729eee4e47775a99 *man/segments.list.Rd
e08ff8ed53290f4a7387e3c677d93cd4 *man/set.group.vector.Rd
7c87f9d1d9615f0300a91e12d3410598 *man/set.pb.Rd
59b1abe1030db439c16ca5cdd207ffb0 *man/set.people.vector.Rd
835dca82fc55a92b70b8effc8765a253 *man/set.rank.Rd
def3448fd7d7a0b9266489142f1ffbf5 *man/shared.repertoire.Rd
a03073802a66597cc352b61995886531 *man/spectratyping.Rd
922d8494e71fc4f7930806b986742d72 *man/startmitcr.Rd
0907bb8b54df388743f575be32888145 *man/tailbound.proportion.Rd
1982c81cc67f14b61888f4d65c9e0bff *man/top.cross.Rd
b23191dd3bac9ab95c457a889c065530 *man/top.fun.Rd
cbf7d61751f652cdcccc46ae9fad9038 *man/twinsdata.Rd
eb0c60f26914736be772820df7526b75 *man/vis.V.usage.Rd
a2b2151e2a71637528045d59f712c1fa *man/vis.clonal.dynamics.Rd
2f90fa65fe37442b26bbdae76c580fca *man/vis.clonal.space.Rd
ba018c1acb22e05bf297a10355ac03de *man/vis.count.len.Rd
85dd18b50dce0c6bcebceeb964a6373f *man/vis.group.boxplot.Rd
54c88ebf9dcea11750499708a3d6eec7 *man/vis.heatmap.Rd
9deecb22b558e42ae4da5acc94fdcdf0 *man/vis.kmer.histogram.Rd
dfa965eef96cca3e0991cfa9bc34497f *man/vis.logo.Rd
774c043d5c42cd8e10ec04d152bbf20d *man/vis.number.count.Rd
213fa41d70b0500f122b82a5c3f0ac6c *man/vis.pca.Rd
c2d4db25c023aad9c8378d5b50e94bf5 *man/vis.radarlike.Rd
317ecc55964fbf5cf8b0142a957475d8 *man/vis.rarefaction.Rd
36d59bf5bb8603f1e5fbf9619b84e860 *man/vis.top.proportions.Rd
e3d3cb360fbfdb3c6974e14eb5f09870 *src/Makevars
e69034809117f2a8b410ff83c0ffc74a *src/RcppExports.cpp
8613b0d97d73171a1f6a526d93a87ee9 *src/neighbour.search.cpp
b2c8d683c33a29bc8706fce81f389eaf *vignettes/tcrvignette.Rnw
