a8aea6282489cdc6c1d92c99571e62fa *DESCRIPTION
670f02ef12dbff51106c8565d490502e *NAMESPACE
4db80429e8434b568f09e28cc25c35de *R/aio.R
cce1b4b74b6a05865c0772a59e8693d2 *R/bmh.R
7ec7593f13298ae5ba000e1e68a23e71 *R/co.R
baa5eb52adc1c7e7565194c07fd5bc28 *R/cs.R
ac4866f8c9dd278821eaac62991f5fc5 *R/fastDist.R
5cc85e83dc6080d3ff6da19b9d3850c0 *R/fixBothStrandSireOrigin.R
d89b295ac79f76da45af5ed713119685 *R/fixRotation.R
f60740b38c24ece95a8c5581d1f3bdac *R/fixSwitches.R
f8e40b19cf34d677070ac353699849a4 *R/groupMatSingle.R
69863a78058a87d0d1517aca23fbb73e *R/hh.R
b8b3baa322cf96bcc4b46ea668309b36 *R/hsphase.R
2e0f5535ac9b4edf4638fb051a3e525f *R/hss.R
2ad604f200f21e222204b3833b066031 *R/ibdCluster.R
77c11284b7263b2c800b1afbc9a0fa1f *R/imageplot.R
d7d650a21c0e1e7f67baf0d61465719d *R/impute.R
8285c30f5bfd23352ac918e9821ea4fb *R/maf.R
ec6ccf9a5bd364378c91cfae1b5817c7 *R/namingInferedPedigree.R
e8c1283a4be7fe5d085d01f56f19a978 *R/ohd.R
21ec7cd34e6dfbe2330d62ee73c2a32a *R/ohg.R
83c62fdf863d7d58244e8b68da624c09 *R/ohplot.R
5eee3c7bb40f19cc671229c0458016ca *R/oneRowhaplotpe2twoRowhaplotype.R
e8274a4ed25bb807218b88b55f531278 *R/para.R
1e5dded4ff25d7034f3ce9bf702b203c *R/pogc.R
1d976b3cdf61a43ea0f68d2e4ccafef9 *R/prCalus.R
d582e5da051bab0871c0767002224132 *R/prManual.R
963d6504ebe5d0b1b1d37779ada8e204 *R/prSimple.R
28fc6901f94d4d27347b5ea2e83f8bc4 *R/rplot.R
27ddf2e157c436a2a11bcbbe044fff25 *R/rpoh.R
d9cfd35d27b18ca683728393083426af *R/rpohhsphase.R
bc7f8dae2c13c52c0806fbff0081d0e9 *R/simulateHalfsib.R
b793c4a1e8ef57b8f2fddc9ce1829b1d *R/ssp.R
86cc7ec212a7fcdcc293266baa544360 *R/switch.R
9fcba781130d26fc2f5d61bbc7e0bd5e *R/switchDetector.R
30b522528fd986153e31872b9f4519d2 *R/two2oneRow.R
ab4d3671a0a35447dda361c666b83fad *build/vignette.rds
0ecf2cfa7ee465ebdd3e9fd9064730e8 *data/genotypes.rda
71afd86079ebd4901e8511807f2243c4 *data/map.txt.gz
d8470085674b544a39d7f7155246b39f *data/pedigree.txt.gz
7760e822405e2eded1be3d91e2595490 *demo/00Index
44f9241619d28af81da39c1f7dd70243 *demo/hsphase.R
54e098198220bdd10ed0d40e72caf96c *inst/CITATION
791ea90a6191c01509527ae4e9da354d *inst/doc/hsphase.R
0ed1a4877d13cf4266a6c0519f25090d *inst/doc/hsphase.Rnw
fb426a5d1ac3ce97a7a5b818b0b4bae0 *inst/doc/hsphase.pdf
9c296274858ae360278e6c9b9a32fabc *man/addSwitch.Rd
2466d6cc2c5f057cb68cf660edee5c5d *man/aio.Rd
4a888b2ee81e32a9b30d96cb58f9fc39 *man/bmh.Rd
d29c0fa03b3e05e0ae1c0d69f6b90df2 *man/co.Rd
279f9ab26c580ea18bbea5114182bec5 *man/cs.Rd
14ba334970ed07cfa420599d3a884f44 *man/dot-fastdist.Rd
fe2cbc8d094cda3e427b93b43575c0c6 *man/dot-fillGap.Rd
0083dcfb699af7141cde23b0ca0e8eaf *man/dot-fixBothStrand.Rd
5fae8ed53ce5207ad29d71e019897b89 *man/dot-fixRotation.Rd
903a2c4956faa6a952d0ef0cfee393a8 *man/dot-hblock.Rd
3fbdb3b0ff75a83ab9dd9785b370f775 *man/dot-ibdCluster.Rd
7f64da886e82cd9193e71efbca948983 *man/dot-maf.Rd
703d1efb5f719916a9f29baeda8afb5b *man/dot-o2tH.Rd
da7699bf85d15017ab5db26dc926c8e4 *man/dot-phfnoGenotype.Rd
03723504bfc568e94002b36b720ea06a *man/dot-prCalus.Rd
3329380b6122b12ff7e1d500325d9aff *man/dot-prManual.Rd
8108216f34c7a6826d2ba827c96939d0 *man/dot-prSimple.Rd
999d8e53121f9c2f1b23c8a7428ebd69 *man/dot-ptr2por.Rd
d2ef1436a3168e9ae6d87a2166e1256c *man/dot-rpohhsphase.Rd
162d412287302920b77272108f3c18ad *man/dot-simulateHalfsib.Rd
d93c0a1f4028862d9ddecd2e340e8e3a *man/fixSW.Rd
61d4ca97251ef9efba1e3a7e39b1b644 *man/genotypes.Rd
662e1c6535fdb316fa98ede451894e0f *man/groupMatSingle.Rd
5041b1621aa0504dfec83e37be5fdc13 *man/hbp.Rd
91f4ec497c6e9e9128f5dbc99d3b71a1 *man/hh.Rd
c1d1c8842dde80e3463eae9b69e6dae0 *man/hsphase-package.Rd
4087cbef132a2250ab34b3b3f6a47cd6 *man/hss.Rd
f9e51bb31559dffd0b55155422c13129 *man/imageplot.Rd
6c14d7955a2616ecf4cecd6d9987785a *man/impute.Rd
1f9918591ec9273a48943d841b8bd477 *man/map.Rd
2c05927cd366476cb412241c012b4ce0 *man/ohd.Rd
551e871a1c9bd18e3eb5cc6108032fdc *man/ohg.Rd
cfba8f09a5c96291facdb60759ec4bdc *man/ohplot.Rd
830ca45a75b1a3f0df5684c0fa92349d *man/para.Rd
a932926b6b65e6a18c4fb11cca3fc5ea *man/pedigree.Rd
f6f08052ba8ba0e2f3507fd294b92b7d *man/pedigreeNaming.Rd
9a733321d79f324b37e6ddea8420a53e *man/phf.Rd
cbd7f727757982dc3889495ba0a59cec *man/pm.Rd
7be7fa9104e5a37b846a1d471bf3478d *man/pogc.Rd
7389e41c4271a32a610607e99d369009 *man/readGenotype.Rd
b88ed526eb59aa5b33c4c0e8a8c8dc97 *man/recombinations.Rd
d93826276369cba19c2f54c3e6de8048 *man/rplot.Rd
a2c14fc1623bfe6bd95d63facb95f7c3 *man/rpoh.Rd
cce92be83d784c900e8c507f5a1ce8f8 *man/ssp.Rd
66e4279076b5356ecc2822324061ca50 *man/switchDetector.Rd
0d167c530633892f5fda4faa6b6504df *src/FastDist.cpp
972fc1ae3e72385d53cff89ce523d13a *src/FastDist.h
831913b78138f11baeab45a20f784a3e *src/FillGap.cpp
8fa3ab64cdc4cc0d3f10ebbc66dd0cf8 *src/FillGap.h
ab82da9ae06e665a8f2a64086d330703 *src/FixBothStrand.cpp
3be3ea05cc0a81cd5154d925122d0c65 *src/FixBothStrand.h
5cd5b87e700bd1b32581b47ba6f8ac89 *src/MAF.cpp
04b95db8f2e583f56ba24d27e86e6592 *src/MAF.h
923ea7172bd05c6523284e898c090b5f *src/Makevars
54727ef4030ae693216aeb9d91568699 *src/Makevars.win
0278845eeddb211838c55d6ccaaf7e74 *src/Ohd.cpp
881d0046b08df14d116addd421e40d2f *src/Ohd.h
afca2485d5d57a30cf6a9b1c28ecbcef *src/SwitchAdd.cpp
3b6745f03f9ca36fd8c35177ffce82c3 *src/SwitchAdd.h
6ba405a11f2a6888425dcf9ea07cc6af *src/SwitchDetector.cpp
3b97d901f1819248ce23e10ddb9583b5 *src/SwitchDetector.h
69d6dba04e4abb81254404a5ab512314 *src/TypeConversion.cpp
bb38f4435b5d2afb7786bae924605274 *src/TypeConversion.h
cd1933a1f780ccea029ee9378eedc1e3 *src/block.cpp
bd28b0b215908f71023d3cfe0349744b *src/block.h
48cd036dda9c91650bbb2544efdcf373 *src/block4Phase.cpp
7e71247264b7a185277be5b57add3453 *src/block4Phase.h
64d659e833a41f93320228ddcd2e53e8 *src/co.cpp
1ca6285d72c61f8948e4f9b3146432ac *src/co.h
b9648ca5741232b1aa75790238f6b635 *src/diag.cpp
316b08678c3e6d0b9b35cb49a3ae33f6 *src/diag.h
e789a9b0d3e4900893a825fa7d67e736 *src/fixRotation.cpp
4141dfd61d7a8b7c7f907fdc24173d5d *src/fixRotation.h
440fda3c2f173aa945b879170fc634b1 *src/hsp.cpp
c023c83c30093db229a80bfea7964d5b *src/hsp.h
e1e52099967d4110c04b9a3753b8905f *src/ibdcluster.cpp
1869d7231bb7be7eb44acd48cd7708bb *src/ibdcluster.h
c3ba3ecef67342e84aee749feecc3937 *src/main.cpp
b94ad2d1209ae5e82f47a7b272ef9dc6 *src/memory.cpp
9520729b3baecb7534b52197cef1cf16 *src/memory.h
fbfcbcffd1c24303b9b66e9e7581038b *src/mhMat.cpp
8e8d18a3ea5fae13e69c1f8af2b3f124 *src/mhMat.h
603a25179cbc1521cce61c64ac17507d *src/oh.cpp
b8e6ba123ef98acc3ed2e72b2cb501c4 *src/oh.h
6056f2bd212a2a4025d09c6315de8e2d *src/ohg.cpp
47ce2dc11f764ccd36f01ee731436114 *src/ohg.h
7bd50d5a559c7758cd4e834d1885d3d0 *src/ohp.cpp
815ede36ec4035450d0ead9ec5e6f5a9 *src/ohp.h
4f9863f502bacfaa4f8c07c871ba9978 *src/swDetect.cpp
6f3f953de1a651d31835e962cf5985fe *src/swDetect.h
0ed1a4877d13cf4266a6c0519f25090d *vignettes/hsphase.Rnw
