c54737aaf8c9ec554c09a5029b868b14 *DESCRIPTION
fff6e6b4d3a250d7f834e4c2f266cb10 *NAMESPACE
1528f3e5b7888ea43b0d1d810fc8c0b4 *R/1000G-package.r
73291800602e5b24ef50448d53db2660 *R/hapsim2-functions.R
afcd2a1a4f9cbe47bc122e7b51258b95 *R/readvcf.R
99b3cb1a8503341d64744a4f7bdfdc79 *R/recombination.R
3b5c58a4820b3a3827599dda3752c41e *R/simulation.R
ac34871e33529a3abdcf12e30dde0a5e *R/writeped.R
15b5d6343ce8caa72e9065489e37f3a8 *README.md
d6946020b6ada2ec0dd6cee79b4f9334 *build/vignette.rds
c338b17c1db72a161b3eb955a95c3350 *inst/CITATION
5515108f7ebbae468824ef5d60f10ab3 *inst/datasets/README.txt
3a4ccf98cbe0cb490373cd29462a4ff3 *inst/doc/ExtractingRegionsForSimulation.R
4f5cdfef851e6e7e4c87d69a57be37e5 *inst/doc/ExtractingRegionsForSimulation.Rmd
016db6283a2152384ac5aea799442eee *inst/doc/ExtractingRegionsForSimulation.html
59c8ff6d96888085a6b84df0d5bde32c *inst/doc/SimulatingFamilyData.R
a0012400b0fbcd47bd0a55d3720a82ff *inst/doc/SimulatingFamilyData.Rmd
c1a581bd99094eb53ec28c0664065c5b *inst/doc/SimulatingFamilyData.html
5dd9b251e2bcabb6f0a22ee0c342c959 *inst/doc/getting-started.html
ce9150836ccbf135ba764e33f487d6fa *inst/examples/20130606_g1k.ped
5763e0e3e9627cf6cb21781c8cb04090 *inst/examples/chr4-geneticmap.txt
f87f5d88050ef3a480d009ef29e8f663 *inst/examples/examine-maf-and-correlation.R
2f1813705347e4e90bbed8866e02aac9 *inst/examples/example1-single-population.R
65b9af565f44b18792a441e8a377cf04 *inst/examples/example1x-single-population.R
f9517547f0ef88d96a93065db2f87bbd *inst/examples/example2-population-stratification.R
3d9c30659a001deef44fe38f9fed299a *inst/examples/example2-stratification-qqplots-and-summary.R
6d991161e769b3c52bf1f81a349990e0 *inst/examples/example4-population-stratification.R
c8215cc0973a7a35d423bb29763964d9 *inst/examples/extract-1000genomes-genes.R
fcee719ce2333233d91b99190e32df65 *inst/examples/extracting-vcf-files/read-and-subset-vcf.R
ea4355ebbd31f1b5b2552deca4377581 *inst/examples/generate-sim-cmds.R
246ee98823ae18075494f5ab38cc6b7c *inst/examples/plot1.R
2bc31988b3df7ef8356ec436f6736c4f *inst/examples/region-chr4-93-TMEM156.vcf.gz
c4c8b3f7eadb70fb5e2624b57ba8ea73 *inst/examples/region.vcf.gz
a8093e398ed6a62d0b6701663c748bc2 *inst/examples/sample_subset1.txt
2e665e7ee89c009e2187ef069f9070cb *inst/examples/sample_subset2.txt
a0b3ed8b74cbf2683e196592e2447f2c *inst/examples/sim1000G-timings.log.R
1b4f9b8e1b133c4981e52dece6ffaa28 *inst/examples/timings.R
cc539f96ffe580f93ea0ac7ab3aa5a2a *man/SIM.Rd
710e20d2ad86da09a71ec279b0e3e34c *man/computePairIBD1.Rd
8d752209690900d4bb9c3a9149d0042b *man/computePairIBD12.Rd
9cce6b1cad34c4199053b90632d40ac4 *man/computePairIBD2.Rd
625742a8270b4538f86d09b557dcfbb1 *man/createVCF.Rd
b39fca65f05c9f0540794c56d5f017e3 *man/crossoverCDFvector.Rd
68138de17496e7825e1929c2d22e37a6 *man/downloadGeneticMap.Rd
2e823cfe7a5298744de8c6709219b64a *man/generateChromosomeRecombinationPositions.Rd
50f001b03c776a82a28559568b877812 *man/generateFakeWholeGenomeGeneticMap.Rd
f433a59522473db8c7ebded8791c2c3e *man/generateRecombinationDistances.Rd
259e27ed5826f01ee6af8f5ac713d467 *man/generateRecombinationDistances_noInterference.Rd
9c2afd262fa1915179ed2f0114fbe2c1 *man/generateSingleRecombinationVector.Rd
498c6a4eab909a0c1e7a4758444fbf7c *man/generateUniformGeneticMap.Rd
1b979f952071f9f51dfcb52c9935aca1 *man/generateUnrelatedIndividuals.Rd
6fd1a711accac472d2d4bcda14e0810e *man/geneticMap.Rd
76ac995a58d42859ce7170ce2897470e *man/getCMfromBP.Rd
a6f114097cdcc708d20cef9776a6fbcb *man/loadSimulation.Rd
ce216a7f45d1908511ec9735b4c96471 *man/newFamily3generations.Rd
ffbd4b90b2484005bb1e3cd7e911dba3 *man/newFamilyWithOffspring.Rd
070738933c67e978bcf5c060f68f5ea2 *man/newNuclearFamily.Rd
c92641760dddafc823761296ea8e39d5 *man/pkg.opts.Rd
694b659e6956b9fc9f7f5ffdfa7f6750 *man/plotRegionalGeneticMap.Rd
ab8f19ec9479f62c5da76369e9fefa86 *man/printMatrix.Rd
26b514821cd85cc49594e9fe2511ae61 *man/readGeneticMap.Rd
262418ae1fab471ee468abc1c0c65cee *man/readGeneticMapFromFile.Rd
3c873da55796b36770fe5fc8bd241f89 *man/readVCF.Rd
6bc8c70c34a6541dada7bf9fe32194b6 *man/resetSimulation.Rd
5246f227792d8bf289c373a16b352995 *man/retrieveGenotypes.Rd
3eeb09603d253184eb9ed01e8303c19f *man/saveSimulation.Rd
3325f12e408f5a75258444b1b00fac25 *man/setRecombinationModel.Rd
fac3ce58b5e2cb683a5bb60090b97f94 *man/sim1000G-package.Rd
bb4e0561b4006c2094d9ec712ae6b1c1 *man/startSimulation.Rd
9f00d699ebf96dcaf5106ceef73996fc *man/subsetVCF.Rd
324f6983a81717ea632e3b9af28f118a *man/writePED.Rd
845973a039dd8dd70a79d3e8e4d27361 *tests/tests.R
12c2fbd81e99c220403c58c389c938a1 *tests/testthat.R
7fdd0247c3024f261f61372fc6f91268 *tests/testthat/test1.geneticmap.txt
2a482839dcf6c1d3e0e2b930a192c1bf *tests/testthat/test1.vcf.rdata
a596fe5d6dcd3938551b701e69d59689 *tests/testthat/test_2.R
4f5cdfef851e6e7e4c87d69a57be37e5 *vignettes/ExtractingRegionsForSimulation.Rmd
0930a063a3c1c7583017f237ae1823dd *vignettes/ExtractingRegionsForSimulation.md
a0012400b0fbcd47bd0a55d3720a82ff *vignettes/SimulatingFamilyData.Rmd
99f510cb24a0ab1aa0a67831e439d42c *vignettes/SimulatingFamilyData.md
