34c04e75489e051973137af390785905 *DESCRIPTION
bec989d218b86c4cb7fe763c6a31527a *NAMESPACE
34456c365afb35ecde76fc2e5a80ada0 *R/HHG_test.R
39861dc08d0e185ceb1c6e52c1620415 *R/RV_test.R
2055cb18888e47fd19473bb36cc208e4 *R/RcppExports.R
c7002a2d8371ab306c2984c44233770a *R/association_tests.R
da080b74d441a214c28ba0c971c1ae6b *R/association_tests_utility_functions.R
3e73d768de059e640c7a8ef8f1dca5b5 *R/build_dend.R
3e8c6432ef8a1cae106c1affdad609d8 *R/create_HapMat.R
a247b8c315c1b721f705ea4a05415bc0 *R/dCor_test.R
49ca7bed5f86d318453af5c40c644f14 *R/ex_data.R
818b45547ac3c99bb70c89b3d27bc8d5 *R/ex_small_data.R
d97b883b06bdb09d75b1a6e3182c1953 *R/find_SNV.R
fdb86372c4be783205f9487ac3067f12 *R/find_SNV_utility_functions.R
f8fd298d1d1bdd02cf311f89e12bc37a *R/make_dend.R
1e7126b457f77e0a7d5ea5638c306877 *R/make_dend_utility_functions.R
12082abcb3c3057cc6fc476aea2c1a4a *R/mantel_test.R
88d027f8077f082a6181fa3e58d808db *R/order_SNV.R
43df0213fd0c31983f46ebdea2c19e09 *R/order_SNV_utility_functions.R
a04893c750b912c7434d812cd4e625d3 *R/phenoDist_data.R
6a361f242bfa5cac83ad89e873f36449 *R/plot_dend.R
ed8fac952d6065c8644b65ef47d1ff2f *R/rand_index_test.R
528356822e4bcbbee35fe9fd898e6764 *R/rdistMatrix.R
f32edfc2e95e86b717b0dd3853f21b01 *R/reconstructPPregion.R
35b9bb18796a2415b6d47b1d10d144c6 *R/reconstruct_PP.R
2991af30bb470bb2b2a532ce9f9f5a4b *R/select_window.R
f98388342e16cda0f67e67dc52fd5e64 *R/subset_hapMat.R
3dd620ce47207a73f7df831a5ee8b2e8 *R/tdend_data.R
c40d3f3dd129f54088ac319eee90dcfe *R/testDendAssoRI.R
81a9e55f973bb8d08d5d414bc155370f *R/vcf_to_hapMat.R
9335fc2c3c3cbb91c0d201537a550c4c *R/vcf_to_hapMat_utility_function.R
35c8cd5ee591fdbdfda5b46f1ab8ac99 *README.md
e257c0914ebdcd82d4c11eb218bab37c *build/vignette.rds
c3cded853a2388ad53569a7105d1c1e3 *cleanup
2026a6bbd3c047aa7ec927181789bd13 *configure
a16ed8560190dcf01a4f95d49f4c4a43 *configure.ac
1904b9fadfa3c386674fa6b6544cf8c5 *data/ex_hapMatSmall_data.rda
77e4aef45109b527469d9850e10c730a *data/ex_hapMat_data.rda
748d784689cf8a986083d5dbd327bb81 *data/phenoDist.rda
9ecff6dda94edad0c68890f6f7030329 *data/tdend.rda
6ce48f1ee2f2daac5c654d7ebaeee359 *inst/doc/perfectphyloR.pdf
8e415425c3db6da5567e96e62c7574e4 *inst/doc/perfectphyloR.pdf.asis
eec1176a2e0c94e41139cb896a7877a2 *man/HHGtest.Rd
bcda94d80ec89c9e583ce7773480dcf5 *man/MantelTest.Rd
7fa8f3e4575418b2a181e0b1a6eb07cc *man/RVcoeff.Rd
1d255b68fdf32b24959121de5ef56771 *man/RVtest.Rd
1abe8adb32a82aeca25298f14355d76c *man/RandIndex.Rd
3652f4deabb07cab5f22cc595483a9ff *man/RandIndexTest.Rd
ef404e2a05689820bdc830bb3ad936be *man/assoTest.Rd
8d5e9326ee2ad3b96cec22367fdf0291 *man/buildDend.Rd
43f85ed13d299225cb17026b4e4a944e *man/checkCompatible.Rd
fbd5e9624c189a963f9a15a5dfc20845 *man/createHapMat.Rd
1d64fc047f678efc2d7538f9802ad04c *man/dCor.Rd
79dbf6d21a3d477fd1b601392aed80a3 *man/dCorTest.Rd
6aca0ddec418b5ca4c1a48e4cb28f436 *man/dendToNewick.Rd
8b3a5c98a6fb8e440d3aa781bcae8be9 *man/distMatRcpp.Rd
5866915ba3c76e4bdbb76e2570414549 *man/ex_hapMatSmall_data.Rd
f6a53cae53232bb8aa84113906889066 *man/ex_hapMat_data.Rd
87bd6e77d935e4e226782939e3f033e5 *man/extractHaplos.Rd
502a5f8dd6ba90060101596366cb7d58 *man/figures/README-pressure-1.png
9eaae5a2771b618466d9e074d199fcb4 *man/figures/README-unnamed-chunk-3-1.png
dbc126d932d0efbca68019bbf6b0370c *man/figures/tree.pdf
5cdb48fe4e1bf9012696aede538860ef *man/figures/tree.png
e5212332a35fabc9679d7f88dabfafbc *man/figures/treedist.pdf
69cbf21ecc55329fd4ac1c3f8a6298de *man/figures/treedist.png
b2dbd31a9808d89887da8e1cbb86627b *man/figures/trtable.pdf
cd126b7923269673c6292fafdced26f0 *man/figures/trtable.png
a05e5c11257df380f521992e8564c7cf *man/findSNVs.Rd
f0027801561018382134362993da10b5 *man/fourGamete.Rd
9680a7d8b51b1771e1673de047bd55a7 *man/getNextFromFocal.Rd
893b4334011e58c244e25c0d432c3594 *man/getNextLeftFocal.Rd
ac377f2a5cb4cf6dedd909e659dd0e81 *man/getNextRightFocal.Rd
5633713687b50285a7dd5b872b624c27 *man/getnSNVs.Rd
d0c998d6540550d91754514922fca447 *man/makeDend.Rd
f4bf8d134594b752f093438e596ca525 *man/makeNewickRec.Rd
6ed677c9a6883d238ffa8328fdc62459 *man/makePartition.Rd
6e0dc714b73a082f11a085b15948f955 *man/mantelStat.Rd
1a37522d777804e1bc664457dacfeebc *man/newNode.Rd
2efbeb597f31ecc2a2f506819c00ee0b *man/noVariation.Rd
8d28a89294fa6749793f7910e58efdb8 *man/orderColsAncestry.Rd
b50b809c3d949af001db1121f6f06432 *man/orderSNVs.Rd
03b656d72cd74bf5d428dca4d1bf5c3a *man/perfectphyloR-package.Rd
d265df15cc60c83c9a11c36b9b9e07c4 *man/performTest.Rd
485b1dd905bbc89f8de3392f6773a436 *man/phenoDist.Rd
cb5cfd30128d1ae5b16bc68fef16ea32 *man/plotDend.Rd
16fa3658eac4f221803c1d87423a126b *man/rdistMatrix.Rd
c8520be4bc7f266c60c9d289b5f00013 *man/reconstructPP.Rd
61bbb8c36b6cfefe17da3c979c321af6 *man/reconstructPPregion.Rd
2ab4454941299121fad557b85b59b06c *man/selectWindow.Rd
c29ad3816536426fe82ddb1c7a3e02ad *man/splitTips.Rd
fe750fc9b15fc08bb76f909165d8ddbb *man/subsetHapMat.Rd
4a516ca0566e708816e27227ca854978 *man/tdend.Rd
ab32261f3b038201f001746f9fd44079 *man/testAssoDist.Rd
4294735b5ef8655fc4366014ab11c646 *man/testDendAssoRI.Rd
d086cf461ce35d7f38519d93a8451f7d *man/vcftohapMat.Rd
0c1ff5062d76c383e6a08fc27b7eac15 *src/Makevars.in
61059660eb073d93e00e8ee054237071 *src/Makevars.win
ffa68dfb61408f987db534b2548731e4 *src/RVcoeff.cpp
33173ca242fbc3c491693c98702dceb9 *src/RcppExports.cpp
e3be8a0101e1b375745862599f788634 *src/dCorCoeff.cpp
8fa3871bed1fd89a30f31db6c5617757 *src/distMat.cpp
8e415425c3db6da5567e96e62c7574e4 *vignettes/perfectphyloR.pdf.asis
