94771761a79fa7712113bf5b7561e393 *DESCRIPTION
f46b97a6a961693412d9c0c76301bb47 *NAMESPACE
75bc2ae434a8c98c8391c68e64fb8406 *NEWS.md
d778a01442f62a331f42f43636d35c9a *R/as.newick.R
791804c313fb1e1bc68e7c5b95ecc92d *R/calc_candidate_regions.R
148c21ffabf93470db1a0d1d790b2b87 *R/calc_ehh.R
51aa2d971505e32f3435718d05f2ca32 *R/calc_ehhs.R
45e3d161b42fb87d9458c27d8f5891ea *R/calc_furcation.R
ffbff0c50c79e34b07212c65f6bc23ba *R/calc_haplen.R
c0a7134ed354a1cc6e2d92cff7cb528b *R/calc_region_stats.R
a1fb5440c3d353c9e0554d490fbe54d1 *R/data2haplohh.R
3caea4a19997c6f248290697f797b4a1 *R/distribplot.R
ef5e101f1c8c4891d5991bf2fd0257b4 *R/extract_regions.R
e5d4611c5eeb4e3f839683a3f665e214 *R/freqbinplot.R
67e29895ffc62bb2930fe863c3cd37f7 *R/furcation-class.R
b9dd5b7b760f2fdb3441fcf332fd8f9a *R/haplohh-class.R
6eebd3fac16bb154d1ea834dd0289c26 *R/ies2xpehh.R
0b91ea1dff6639b4c3b4f13dea539637 *R/ihh2ihs.R
1fc5288e0bd273f896e5daef79a8838e *R/ines2rsb.R
1ab4dd6448b5781c7abf510cd5be6750 *R/make.example.files.R
f1138821f4d4882da57c5499764342fd *R/manhattanplot.R
8cc57a706d73f746072fa9554b270b91 *R/plot.ehh.R
db21d9cc217e3785a0a6e29bfd6b6b99 *R/plot.ehhs.R
9133e93f4d7931df68f8e97dc3347ecc *R/plot.furcation.R
562bf90c94616972a745c618e3002078 *R/plot.haplen.R
d7e6a316a20e506a6050fd06bc242bd4 *R/plot.haplohh.R
d0c64f19c95d71847c72b56a14db8de9 *R/rehh.R
524f8a8fdb638e7a059f50f067ab9e56 *R/scan_hh.R
d857d3be60093cc3900f1d221fd867fc *R/subset.haplohh.R
9d53dfc94e3a08334b06091ab986217d *R/update_haplohh.R
3b8aad495fc65ba8f0ea6a2404524195 *build/vignette.rds
bbd50c8eb813216188dce7896d1490d3 *data/datalist
91be48fb8754c805321891b9374459f3 *data/haplohh_cgu_bta12.RData
8439f1531106aeabce40b21067a1ac5e *inst/CITATION
0ee64a467d5c93db7b2be307e11f26e2 *inst/doc/examples.R
b95272364cd9cf5b1878029bfd9806d9 *inst/doc/examples.Rmd
020f8f9d0f10c07ee1090cbca099d0a4 *inst/doc/examples.html
ed76eaeccd8abfc4252be98087ee5fee *inst/doc/rehh.R
095c11f6a5d65bd55224e56be780facb *inst/doc/rehh.Rmd
d776c3fef331e1067015c27239510bea *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
e43b5b616e972b190f596b0791aafdcb *man/as.newick.Rd
7d199b2def3e6d19e90ffa4128531956 *man/calc_candidate_regions.Rd
f965ab25f17fd7a5662cd95471796412 *man/calc_ehh.Rd
afb07144a7c2f87cb1cf21bce003c4e3 *man/calc_ehhs.Rd
c933fc808090cbc1cade18247471df48 *man/calc_furcation.Rd
6c5e8cf39522501c991901408e671aaf *man/calc_haplen.Rd
2acaa7c3c89fcb46f3c7e4f370160986 *man/calc_region_stats.Rd
db9874cb4175160771d2cd213a308712 *man/data2haplohh.Rd
de43ae62050ec49c91c44138fe93b67c *man/distribplot.Rd
d557df62cd52e701005da0a5f0d8ec7c *man/extract_regions.Rd
17a00bb024774a6d4ef9491306f79872 *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
8f39cb0fa8ff33094b34f5cc094afa8d *man/ies2xpehh.Rd
53e588ceb4a78d806505251b4fb6f763 *man/ihh2ihs.Rd
5823cdec432bbd985be9063d46fc6af0 *man/ines2rsb.Rd
2449dbe55eb56665554d7fc8ee255766 *man/make.example.files.Rd
704045fb4408191c2962598b09080c7c *man/manhattanplot.Rd
a4e3992d0ed857fc59f0657d03c1ca6b *man/plot.ehh.Rd
a772cb8243920fa1059005c702c51487 *man/plot.ehhs.Rd
c7933322276a4b8fa37433e050766c4d *man/plot.furcation.Rd
939fa1dcc75eacda1eef877ee99c9e7b *man/plot.haplen.Rd
a64d225fc9b4a68a04dac64162192593 *man/plot.haplohh.Rd
2b1b8920146f7bbc54396addf3f03879 *man/rehh-package.Rd
0b3af48394811f7b7e481ca6fd7c63fd *man/remove.example.files.Rd
45cdc71bbd960cd9da1bfc0ed4e2eb16 *man/scan_hh.Rd
ce6e4d831dabbd3ded45ea6a4cdbf433 *man/subset.haplohh.Rd
35d96dc7734635751107a32802c872c7 *man/update_haplohh.Rd
4d5a8361bb0b749fecccb68f6088602e *src/CALL_ASNEWICK.c
d7ee562cf369ab9c16188453b8e698e6 *src/CALL_EHH.c
421683d3609dca5a582bbd489f349b3b *src/CALL_EHHS.c
659cd41dcae4e182b7a33deb7139333d *src/CALL_FURCATION.c
01ec9235047849a5335bfc252be7e73d *src/CALL_INTEGRAL.c
708dd871f37aa66ebffd929428ebe064 *src/CALL_SCAN_HH.c
95e3011e37d9dde0d75f3a3819b2acd3 *src/Makevars
fba8f42eba26752e28b32338665d7348 *src/asnewick.c
d98fa6c9f6b8cd6502e9d03eda4f41b8 *src/asnewick.h
819a439132d0a2e862a1079425405fab *src/calc_ehh.c
cfbb12b9e0e5de648ba37d39c596cc9c *src/calc_ehh.h
ac77db99e66362ccb2b52f2bf09f85f3 *src/calc_ehhs.c
336ee23f031d884765dcfc1da9a46052 *src/calc_ehhs.h
b2a8487f6edfa73e66c93c1ab04fbfc5 *src/calc_furcation.c
5c97cc59d8ec357bb6fbbe6278ed05b7 *src/calc_furcation.h
519fe6b16ed58d8c87b5a5ec97b3ba4f *src/haplotypes.c
a938111c2781f53b9ec9624ffd4caabf *src/haplotypes.h
29441637b9f2e8c074323b102c802683 *src/homozygosity.c
8a0372f7038e294975eba1db483598ca *src/homozygosity.h
155d0774b8e1a5b46e3892a985d4b332 *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
0f2d4d7ffafcef03cde572357aa3508e *tests/testthat/test_calc_candidate_regions.R
1570a232ec8555934f22ea3bb6b2a70b *tests/testthat/test_data2haplohh.R
9234bc2693bc65ba6bcb8a56950dd0b9 *tests/testthat/test_error_messages.R
1a570d236bede70a7d58dc31f3f2c562 *tests/testthat/test_examples.R
83461c197932114fbb6185821cdae353 *tests/testthat/test_ihh2ihs.R
92ec3d02dd0aaf89127226ec51e4b0c7 *tests/testthat/test_scan_hh.R
b95272364cd9cf5b1878029bfd9806d9 *vignettes/examples.Rmd
80ac2e78110aa3e54fb5ce824bd5574f *vignettes/genetics.csl
095c11f6a5d65bd55224e56be780facb *vignettes/rehh.Rmd
04076aed629898001d7eb36abfc30b3b *vignettes/vignette.bib
