d2384e2f4bba7af2aeb76b4cf29d8024 *CHANGES
10b1fa2e90ecdbc2a30f0a511e2d0843 *DESCRIPTION
b4cbf4d05af32865b1b62845926a278a *NAMESPACE
0c397c9b1e2cb7558093a8c517f6ad5f *NEWS
3a83f02aa33b5669cd5c4fd1dcd0dfea *R/AllClasses.R
c82efcd057f6371f182d9b58c409c92d *R/AllGenerics.R
619ff6b0399a6908d18e8c4b89b74f17 *R/datasets.R
d3c7399d4a616bfbee0ceabd32feebec *R/functions.R
10a8f2c42dfa119b79882960a9bd3d60 *R/help.R
d19edf953d3cbb3232b4ac51338c007a *R/hmm-methods.R
fa5943c9728a0a8ca760d0e27d2d9cb7 *R/methods-ArrayViews.R
b0cf77b371c5f42d81abd9ca3430596f *R/methods-CopyNumScanParams.R
15ddf90a5d83f9bf3e05d39674848abd *R/methods-EmissionParam.R
f77e2f88c3b15d95f1f5805e613e1b77 *R/methods-FilterParam.R
559bc36d17885eb3b6b6814797441e89 *R/methods-HMM.R
7008b5b9c0bbf74dda5dd14476a39ce0 *R/methods-HMMList.R
855412bd84400aaa0bad10c0304e51d0 *R/methods-HmmGRanges.R
b331fe034e2dc3f44f8cfcd01a8b9f4c *R/methods-HmmParam.R
a258edd9b8ff4a4a220dde62d377b498 *R/methods-HmmTrellisParam.R
3665b4c115df2a9194246e59a24bf5bb *R/methods-IdiogramParams.R
759d291395f5f9f55ee73f2d3cbdca51 *R/methods-LogLik.R
ac553b26b0162f57f1fc5a1f286b8448 *R/methods-SnpArrayExperiment.R
51bb62169bcac81d9307a56d931a6007 *R/methods-SnpDataFrame.R
e1ce9f1a66ce4d39aac622c63485146b *R/methods-TransitionParam.R
66a68a1ee6428b882806896af9d62ad2 *R/methods-Viterbi.R
506403109d9b54f1f463f4b0ae1901ea *R/updates.R
3d2156a9b77267e21cdac528818d1c25 *R/zzz.R
9c485b6e62a3ee0751321d5e2d245908 *build/vignette.rds
ea2b89a52e9885be213ea104e65e4b8c *data/snp_exp.rda
61c3be5de34beed0729495feee49ff85 *inst/CITATION
1d030c607d59b662b1ab957dbd61b707 *inst/NEWS.Rd
dcda30135d7171a94c6f2cd95d79ec06 *inst/doc/VanillaICE.R
cb140d61158e370cfaec3cfc7e369477 *inst/doc/VanillaICE.Rnw
731f9de91f7147ae746ef2f3b1c35627 *inst/doc/VanillaICE.pdf
110b3c6d333aa622720f601a1bd9dc16 *inst/doc/crlmmDownstream.R
21095b6059ba01473a990303f33fc454 *inst/doc/crlmmDownstream.Rnw
26314905fb322775a1afe871e978f810 *inst/doc/crlmmDownstream.pdf
0447715fdae0a7d16252fb6ed285ecdd *inst/extdata/FinalReport1664.txt
ced1278febff90110128fe422751bab6 *inst/extdata/FinalReport1675.txt
c70d39336189b7781e5e2f55e23b2642 *inst/extdata/FinalReport1686.txt
bf543d199b10c1dc65ff789680cf5c0d *inst/extdata/FinalReport6841.txt
8b479ef7ca10064b3ef70b840b21d11f *inst/extdata/FinalReport6872.txt
c91acc99db7195be410bcf152b98cf45 *inst/extdata/FinalReport6903.txt
150393f25d768b854316ed30add44767 *inst/extdata/SNP_info.csv
2c1d13e3e83f38aaab3f327961441fc1 *inst/extdata/sample_data.csv
49ed3da3a3dfb8246d939e1c045a734c *inst/extdata/snp_exp.rda
f6f762aa6c6fabd917216d7a503d4550 *inst/illumina/illuminaEx.txt
9e886f1f9a9dcf7509ec18e836d1b59a *inst/scripts/crlmmDownstream.Rnw
d7e3c6ba592853e822693652ea3c8ced *inst/scripts/crlmmDownstream.pdf
08188c07d38d599e7215712c7c13ad68 *inst/scripts/runcrlmm.R
4a6ea40db9cc44323ef7a2ebcbdaf53f *inst/test/crlmmDownstream.Rnw
3dfb5c4b35c24eb9aa6c627c8a058b7d *inst/unitTests/Makefile
a599bbb548632444ee2137ee39c8274d *inst/unitTests/TestData.R
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68b329da9893e34099c7d8ad5cb9c940 *inst/unitTests/test_BeadStudioSet.R
9a254b977ebdcd94f28e4cf3fba91d67 *inst/unitTests/test_FilterParam.R
5bd913e28e19365bbdeeff677ba68ba9 *inst/unitTests/test_HmmGRanges.R
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f4412bbcbbc2cfd4d7843061155c9068 *inst/unitTests/test_SnpGRanges.R
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e7ec704ca20f3f5dfe3650b9885225a3 *inst/unitTests/test_hmm.R
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2f7c931246bc1ae246387c59ec612cb4 *man/ArrayViews-class.Rd
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5930e11e68f678dff76eb4710f14eed6 *man/HMMList-class.Rd
346013f0a4ab087beabeabef54e6dca3 *man/HMMList.Rd
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7f19e845f5ed1fbd49e06298ef21eaaa *man/HmmParam.Rd
13f6343436219337d8136f0a212ad67c *man/HmmTrellisParam.Rd
a6b400c298297d7bad78fc2eba2069da *man/IO.Rd
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1df9e572b39f2a44c00846b161d8aab4 *man/IdiogramParams-class.Rd
3f9abf5f7fecf0a1d8b7e1d9ba266f5a *man/LogLik-class.Rd
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8ef4df0e23607a6b5abd29e433ccde43 *man/TransitionParam.Rd
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0ff64380ccb266e4c18eae2c77c56d91 *man/acf2.Rd
1604078de99408804b7cfc3fd8311cf3 *man/baumWelchUpdate.Rd
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66608809ed4f8eae1197561e6ce9b4ba *man/cnvFilter.Rd
6c1e26d1eaac5cf93466acf5553a2415 *man/doUpdate.Rd
1d094daa53d7dc0db9156403fc312991 *man/dropDuplicatedMapLocs.Rd
381344bd8ad4457ca1dfa6ee67ba999c *man/dropSexChrom.Rd
2346f8b385f04545df918345d833f77a *man/emission.Rd
602fe4507ec8127aa1b1cc4702d701f1 *man/emissionParam.Rd
126e806c8fa5f1b9d04f2f2fe3934ffe *man/filters.Rd
7ee57102ba32fe19e6952a98d7d1340a *man/getExampleSnpExperiment.Rd
70497949994ff23bf1c5cc8c7d391f94 *man/getHmmParams.Rd
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5725898312d29bde635bbc425df81c50 *man/hmmResults.Rd
5212beb236573a779a72aaa616d72e1b *man/isHeterozygous.Rd
0c726589b1b8d2e137100006d70e0dc6 *man/matrixOrNULL-class.Rd
64577e71516c14b45b8c7ce3bb296812 *man/numberFeatures.Rd
3f57389fe2271e291a0a677062bb2866 *man/parseSourceFile.Rd
51e5ed446d87a6f260168ea616e3f584 *man/parsedPath.Rd
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32fcb7a3afe913fe4b97712e7b7fabab *man/rescale.Rd
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7d193920e7473f98a4040783e97f020a *man/snpArrayAssays.Rd
2c64164ece5d84f110f3bcaf6edf0f65 *man/snp_exp.Rd
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5be34cb5df84dd6b1324436acda4d789 *man/start-oligoSnpSet-method.Rd
69c0cd818b94b322f9c34563ec1ad43d *man/state-methods.Rd
3348405befcfe29debf2a26232b2d751 *man/sweepMode.Rd
10cffc1d9763815e645a7bd0a523e862 *man/threshold.Rd
e73158274f71e67fdd6c4bbbfbd98aca *man/updateHmmParams.Rd
4c21508fb40ceeb18b9bbadcd2b71309 *man/viewports.Rd
547bd1b5d8557ac48c2b72b9f4ac8203 *src/Makevars
882d8bd2fa252f8cb03dbb9d06230b95 *src/rinit.c
7ea9eea46b17608a01c7806d085a0272 *src/viterbi.c
37ee1d0caf6b3f31efabfee70db1432d *tests/doRUnit.R
cb140d61158e370cfaec3cfc7e369477 *vignettes/VanillaICE.Rnw
21095b6059ba01473a990303f33fc454 *vignettes/crlmmDownstream.Rnw
2d4926582a30fe1f9193fc634d1deb64 *vignettes/ice.bib
