e8df5c653b6f080ceec1f1ae4b300d99 *DESCRIPTION
7b317eb9a39525697b0b55a162c8d863 *NAMESPACE
eeeef366de01304cfe0767323cbad01a *NEWS.md
74031c0989c9e2c158066fc822ab2ad8 *R/as.newick.R
3505907de4c22f0831f7cd3f0d3ab804 *R/calc_candidate_regions.R
cdaa52e494ffa249a07e69fae2acd145 *R/calc_ehh.R
d7e404a7064e70331d50a7c4abdece6a *R/calc_ehhs.R
797a015f44384bc174105ddcf3dad2c0 *R/calc_furcation.R
745df6448a5a97c68f8cfa094014405b *R/calc_haplen.R
c0a7134ed354a1cc6e2d92cff7cb528b *R/calc_region_stats.R
af2cd88bc7ebbc60dc18e794b4d813fc *R/data2haplohh.R
588f8cbc8a33f63d54c481f73735edff *R/distribplot.R
ef5e101f1c8c4891d5991bf2fd0257b4 *R/extract_regions.R
744c949803eb5da6b213e83b64cda7a6 *R/freqbinplot.R
67e29895ffc62bb2930fe863c3cd37f7 *R/furcation-class.R
b9dd5b7b760f2fdb3441fcf332fd8f9a *R/haplohh-class.R
a1c89872e8d8eb4755d52a17824bcc48 *R/ies2xpehh.R
a620284e61a71890e55222db98ab8582 *R/ihh2ihs.R
e0680c30dd0696ae2e38bc212e11e507 *R/ines2rsb.R
3c62178711be46f0717f1a7c5bf1cfad *R/make.example.files.R
cb293fe5773b45ddae033b04e2a6ec13 *R/manhattanplot.R
a4140ed43f0c8c7b443271725f0b2db8 *R/plot.ehh.R
0d2ae3db5e6d72010fe0b2f1bba89355 *R/plot.ehhs.R
f848a67fa416dbf79548f086dd4cdd7b *R/plot.furcation.R
c442236d3ba5735cd850cea88c2465d8 *R/plot.haplen.R
d0c64f19c95d71847c72b56a14db8de9 *R/rehh.R
eed1901c1d4f494c2419a05f7bf69ecf *R/scan_hh.R
d857d3be60093cc3900f1d221fd867fc *R/subset.haplohh.R
9d53dfc94e3a08334b06091ab986217d *R/update_haplohh.R
a68b9495838427b5582160d3b0793279 *build/vignette.rds
bbd50c8eb813216188dce7896d1490d3 *data/datalist
91be48fb8754c805321891b9374459f3 *data/haplohh_cgu_bta12.RData
8439f1531106aeabce40b21067a1ac5e *inst/CITATION
922b9e2afd43c127cbb1faedfeae7d26 *inst/doc/examples.R
129715450abe7597d3739a7079c87d3c *inst/doc/examples.Rmd
2b15ecf71166a01733eefa259514da4b *inst/doc/examples.html
102a4a41c70525df279ead3a3fcc98fa *inst/doc/rehh.R
7ddf31fc0c3b238db19a36faa5e1f23e *inst/doc/rehh.Rmd
2f6dbf09f263518280bbfd6675ae4be1 *inst/doc/rehh.html
529c33971c081bacc8d00072aac22b20 *inst/extdata/bta12_cgu.vcf.gz
1a13676197023c7796532d96aeff7f76 *inst/extdata/example1.hap
98aedc74c294ec4769b8e3272200fbbe *inst/extdata/example1.map
ef932b5c063861aae607ee0a93f33fb1 *inst/extdata/example1.vcf
259361a2879d15a50f494d8cb2322f95 *inst/extdata/example2.hap
05fcdbaf97aff8c6125dff9c40770538 *inst/extdata/example2.map
5e14d8117c9a49dac08ad3970a046373 *inst/extdata/example2.vcf
e444d999cd7277d08690d6031446baf1 *inst/extdata/ms.out
3f1bb468e3b3346d7925ed893f668d22 *man/allelefurcation-class.Rd
842becf108af1629d610bc9081662cb4 *man/as.newick.Rd
59e4c463b0d741d473b4256cff086db9 *man/calc_candidate_regions.Rd
f9bbfb82de4790a148ba7482cb9300cc *man/calc_ehh.Rd
916e9d4ab719d1b9e8d33cc0241f2ab5 *man/calc_ehhs.Rd
79dcbfe6e83aec2b0de18f724765a53e *man/calc_furcation.Rd
6c5e8cf39522501c991901408e671aaf *man/calc_haplen.Rd
e18570a97fd50d0df4111d790bf245ee *man/calc_region_stats.Rd
f231593cf54851b958d0efc724b723b6 *man/data2haplohh.Rd
62c0131d7b4543cc2f31da62a7aee1f5 *man/distribplot.Rd
d557df62cd52e701005da0a5f0d8ec7c *man/extract_regions.Rd
2a13e80c04c136ac03c4b9bdbc83b8a5 *man/freqbinplot.Rd
21f93e394201b1b91a9de96890fa918a *man/ftree-class.Rd
536fed5f2c27702ea15260cd63cf20d7 *man/furcation-class.Rd
128fede3b0de4f84512e35c295433af2 *man/haplen-class.Rd
9917b0686748d15925dc890f045a076d *man/haplohh-class.Rd
19f420177774208570ef4e7b5d7cb520 *man/haplohh_cgu_bta12.Rd
6913342a55ee5811a4e9f39f0ee3968c *man/ies2xpehh.Rd
f383c45df8646406bb1a44520a5bbe64 *man/ihh2ihs.Rd
d74f578c05f303809689c81f303416c0 *man/ines2rsb.Rd
2449dbe55eb56665554d7fc8ee255766 *man/make.example.files.Rd
1ac18c38454985044d1bec1b029b96ed *man/manhattanplot.Rd
c7ee1ac9e4f466934f9a5a88968808bb *man/plot.ehh.Rd
09e125e998f0372026ef0eff3a071bbf *man/plot.ehhs.Rd
d237c5306c860512974bfad89c3ffbb3 *man/plot.furcation.Rd
96ef8783df0b4bd6ce2480761e6bc809 *man/plot.haplen.Rd
8faf21e8eda3e007c35f208156794f4a *man/rehh-package.Rd
0b3af48394811f7b7e481ca6fd7c63fd *man/remove.example.files.Rd
a905e3114bc7985143cf4b99ae70b8b1 *man/scan_hh.Rd
754c33f0427ec2ee636435384956f310 *man/subset.haplohh.Rd
35d96dc7734635751107a32802c872c7 *man/update_haplohh.Rd
356c124e5620a1c622d55ff57c7e37f5 *src/CALL_ASNEWICK.c
4ad8aff83fa40c49ae38ee906417d7a0 *src/CALL_EHH.c
1b4c3bd53107a14ba0755beed0f73857 *src/CALL_EHHS.c
659cd41dcae4e182b7a33deb7139333d *src/CALL_FURCATION.c
01ec9235047849a5335bfc252be7e73d *src/CALL_INTEGRAL.c
60d1b5b119ffd17896b4fffe6c92b139 *src/CALL_SCAN_HH.c
95e3011e37d9dde0d75f3a3819b2acd3 *src/Makevars
fba8f42eba26752e28b32338665d7348 *src/asnewick.c
d98fa6c9f6b8cd6502e9d03eda4f41b8 *src/asnewick.h
e53f13f0e41506434f72f1664be701ac *src/calc_ehh.c
b45deb471a9377aadd2768332bb3d38e *src/calc_ehh.h
0bfe769b3c04931cb75b8c27893a9578 *src/calc_ehhs.c
1c87b41a663363e891403487e722225e *src/calc_ehhs.h
fd91c56f968f91fdeb2dbd90b25a4529 *src/calc_furcation.c
5c97cc59d8ec357bb6fbbe6278ed05b7 *src/calc_furcation.h
f8925fd635e0a4c04864f9ea5cc3667c *src/haplotypes.c
a938111c2781f53b9ec9624ffd4caabf *src/haplotypes.h
29441637b9f2e8c074323b102c802683 *src/homozygosity.c
8a0372f7038e294975eba1db483598ca *src/homozygosity.h
385bfd58102ee7463582c0e4e673af1f *src/init.c
770b949421c991f6de03d3d198cc9316 *src/integrate.c
8c831ecdc63d855a963814662ccb25b8 *src/integrate.h
7d20b8af53a3a33835b45ed2dde1f2ff *tests/testthat.R
7f87b223f6153b8926956609ba293241 *tests/testthat/setup.R
a177583dabfe62a659b2d0ff4e5829d8 *tests/testthat/teardown.R
24f1a0800000b62bcadf246f09a556f6 *tests/testthat/test_calc_candidate_regions.R
1570a232ec8555934f22ea3bb6b2a70b *tests/testthat/test_data2haplohh.R
9234bc2693bc65ba6bcb8a56950dd0b9 *tests/testthat/test_error_messages.R
0f9c93bb0b6aeab41c3f5bd5e3e863e3 *tests/testthat/test_examples.R
c6e33e4e6325fedd8aeeabda3f23dde1 *tests/testthat/test_ihh2ihs.R
92ec3d02dd0aaf89127226ec51e4b0c7 *tests/testthat/test_scan_hh.R
129715450abe7597d3739a7079c87d3c *vignettes/examples.Rmd
80ac2e78110aa3e54fb5ce824bd5574f *vignettes/genetics.csl
7ddf31fc0c3b238db19a36faa5e1f23e *vignettes/rehh.Rmd
162b77070e97e7aeef89f46664627c60 *vignettes/vignette.bib
