e7c2efe481a8f00ef895c43ae9b1181c *DESCRIPTION
1a843ae20a03bfd7b3cf2bb2df918857 *NAMESPACE
cd3e0492c196336012b38266af3b43f0 *NEWS.md
1163a8053025cf70efe09366af09b5a9 *R/Data.R
376ae3a12c48f893fcb308992cd8e46d *R/GermlineCluster-class.R
5b8b39738deb14be49833d0a27f558be *R/RcppExports.R
0421ea8caf16e2246706006f1046f79a *R/allele_cluster.R
86af25a5e758f873733688459e39cbc4 *R/allele_genotype.R
c4a930020abc1a2865d4bed86b85d381 *R/community_detection.R
df6cc46bc7fae1a55b713f3d5065b35a *R/piglet-package.R
80d1f81a55e45872856d9b7ac30827ac *R/piglet.R
7d6269d7616070d74d3ea5facb1caa47 *R/utils-pipe.R
27d5162eaa0736a9c5da1f1454f17a63 *R/utils.R
9338afea8aa9765b11461682954e870b *R/visualization.R
0d462c8d7fd414ae5b074aeed9e62c24 *README.md
76e123f5dcc8dee07678412adc0a2a84 *build/partial.rdb
d1d59c28e638efb87467b368de8ad62f *build/vignette.rds
398d41d5515cf70e0301ae59f5e8029e *data/HVGERM.rda
7ff84fd2a81c9492fded5ee6aa0bc5b4 *data/allele_cluster_table.rda
bb2151c2660fcbcd3f0fe73cd1a9381b *data/allele_threshold_table.rda
7775e8e5f51eaf2003f18f982b43de88 *data/hv_functionality.rda
d8023faefad3b819d0105900e9c75fc0 *inst/CITATION
d09be6e3e3d5c48080e17a7ff445c8b4 *inst/doc/PIgLET-vignette.R
a0d74265f536c11bf85a44c6f25b1d84 *inst/doc/PIgLET-vignette.Rmd
d0674220e7c7f20d0231feb6d9d4137b *inst/doc/PIgLET-vignette.html
9d71a791b4c7fe535c66dd24119075c2 *inst/doc/PIgLET_biomed_asc.R
027bfce88c5fa022c5c05d50885d3406 *inst/doc/PIgLET_biomed_asc.Rmd
5ec64e454ca4a7c3bfc7be48352c35ea *inst/doc/PIgLET_biomed_asc.html
47dcf9164b8bac93ee58f36d701de33d *man/GermlineCluster.Rd
52ffd56f51c5b1ab77624394166098e9 *man/HVGERM.Rd
7e94b12fc2d8b938fd3fc763271be114 *man/alleleClusterNames.Rd
2cbb3e7a69a7cd1419be5d0fb96a787a *man/allele_cluster_table.Rd
f42eccca7c72703f094780ab24e3688b *man/allele_diff.Rd
cf29a253aa990d7e10c48fa0dbb80f02 *man/allele_diff_indices.Rd
aa0d5ed517f4ba925ca97b0fb0ab4c2e *man/allele_diff_indices_parallel.Rd
13d2a8834bd5c309c11e8c5dda13f3d0 *man/allele_diff_indices_parallel2.Rd
8527cd80a6d4097a82993d0e59b9cf69 *man/allele_diff_strings.Rd
1dced035b3e9d360a1209614d9b0332e *man/allele_threshold_table.Rd
a76d5bbd06280bb76abcc5fa2b11a4cc *man/artificialFRW1Germline.Rd
eb7b7df0159419a5b7947f98e30f5d0c *man/assignAlleleClusters.Rd
6b986d954c631a76cf1ac7d518f774ce *man/compute_distance.Rd
547e966cc9f599d1645549fd3c6ae970 *man/detect_communities_leiden.Rd
b8e6283838f786b0aaf56a9d2fbc6676 *man/distance_to_graph.Rd
d9c2508c0d60e2ff694d25dd6d8b11a9 *man/dot-create_iuis_labels_with_markers.Rd
a0f3711474c4fdc6568cd59d93cb6e70 *man/dot-getNClusters.Rd
329e48d639fad5b4fa07eccbf92047f3 *man/extractASCTable.Rd
561bd36c2bb287a275d89dc341698c87 *man/generateReferenceSet.Rd
dae9d04b0df5bd59118cc91cde637294 *man/germlineASC.Rd
63894809f6f7289d619401791d633f81 *man/hv_functionality.Rd
581794a77baee408a9ea9a38416733bf *man/igClust.Rd
a6e2fb607efc6c4f9bcefe30960264af *man/igDistance.Rd
f50da73a100dbf4103c3a6e940b0e785 *man/ighvClust.Rd
25939b8a2e1d4278d8fb409c12fe1cc1 *man/ighvDistance.Rd
3a18b64bdfc1768cd16f514759facb73 *man/inferAlleleClusters.Rd
7654ad742c88a5c459223b6491bcdd5d *man/inferGenotypeAllele.Rd
41b68fe3b3a4ca2f5dcb4a180bba6572 *man/inferGenotypeAllele_asc.Rd
c873b6c7d7696a090adf84d623a8e599 *man/insert_gaps2_vec.Rd
9cf90e16817e418c130be650101d2cbd *man/new_germline_cluster.Rd
ac439f0723ed4a3e8775f0054f7293c7 *man/optimize_resolution.Rd
2524e6a7210ae63a33fe8bf15560fc60 *man/piglet-package.Rd
aff6d222865c63422bf4a17b2689009b *man/piglet.Rd
8f4aad003a999fae004ba9361f9a99d6 *man/pipe.Rd
d0742bab3a2d9a8e0236707bdc969fb6 *man/plot.GermlineCluster.Rd
179fa697e299e69bca093325665f17f0 *man/plotAlleleCluster.Rd
7bcad98463e363807969ad70771f34e6 *man/plotClusterComparison.Rd
5702efe1a569708889b44bd8c621a487 *man/plotCommunityNetwork.Rd
00f5ee8fc6a3159a015ed8b09d91bef4 *man/plotSilhouetteOptimization.Rd
16cfe224a50ed9ce00f544af885089ec *man/plotTruncatedTree.Rd
89e17d6e0990387df8b8d4ea66ce285d *man/print.GermlineCluster.Rd
d85123c2319390a603a9ae4b2d10d34d *man/recentAlleleClusters.Rd
18e28e389a106cb11d7a3e15b3720f3b *man/summary.GermlineCluster.Rd
c39dc6169a8a07727b94be304508daea *man/zenodoArchive.Rd
12f9582cc1ce9a96e0e9db102a55d861 *src/RccpAlleleDiff.cpp
b1b4fafa4132b216f73eacfeb9a86d71 *src/RccpFunctions.cpp
20e44503e52da8903d7d4a1c5b21048f *src/RcppExports.cpp
aee1d8536421030d428733372b795dbb *tests/testthat.R
39fd0cfbd33baaed769f44ea8d6302a1 *tests/testthat/test-class.R
dbde7d4ecc699b58e2a08d734f0c1ce5 *tests/testthat/test-clustering.R
bf4a6e5f0a940f5dac36b879e604ede5 *tests/testthat/test-community.R
35c6739ece88dcfb7d279ce4f19304d8 *tests/testthat/test-distance.R
b04c2b3ab49a4d0fb366b14ae902d65d *tests/testthat/test-inferAlleleClusters.R
a295ae40ce7a90e730d8e63ead81e491 *tests/testthat/test-plots.R
a0d74265f536c11bf85a44c6f25b1d84 *vignettes/PIgLET-vignette.Rmd
027bfce88c5fa022c5c05d50885d3406 *vignettes/PIgLET_biomed_asc.Rmd
a88b45d131aee475c0c25c7142168f3e *vignettes/asc_alleles_table.tsv
facbde6f6909525d013568d525e457bb *vignettes/bibliography.bib
10212ab4b020826a913e3dae1364a361 *vignettes/ieee-with-url.csl
9c83901f82173957df4512e7af405c02 *vignettes/piglet_logo.png
bf3315af5423c85a5489647c6a3e889d *vignettes/piglet_logo.svg
