67b62f98911c27f6e0badd50f5763b30 *CITATION
d86a9f263b374a3dd3f1bf900c819042 *DESCRIPTION
aca100131c2a007968e764124f1b09b8 *INDEX
eda482ec6c2ecdd692d43567710aa46e *Meta/Rd.rds
8503e676975364d771072956cdbca633 *Meta/features.rds
f073b9d1d60c53344de8706e5417b96f *Meta/hsearch.rds
2abbf7f3e919e5dc8448660468b8b649 *Meta/links.rds
4810c5379b877e6f486026f37c658edc *Meta/nsInfo.rds
0fdde9f16843b7b2406312b207772d46 *Meta/package.rds
54d9fec9cee76b238e1e6519807c1db0 *Meta/vignette.rds
5f76fbc91b221820ccb851813a2ce594 *NAMESPACE
d4545d162050a329d27c1dc95217bab8 *NEWS
d6c68f1fe41ced6e98a766a3757313da *R/ramwas
f388c0947beef1c18f8f0de16ceeac09 *R/ramwas.rdb
cd85b9fafcefd71795e66d80726ffe6d *R/ramwas.rdx
5d0c2309eb450dad8c45ee7cf1195721 *doc/RW1_intro.R
b1e2e722c8d4c23c752ae5aab2d9174d *doc/RW1_intro.Rmd
a0e71fd5a17ceed4223381d76e6b993e *doc/RW1_intro.html
265c0d9abce8ee43b44e3e065d0f7af3 *doc/RW2_CpG_sets.R
8357085dd4fa6c7136cd4abd1594bc89 *doc/RW2_CpG_sets.Rmd
d15352def99a1e2dd0432d0076a71515 *doc/RW2_CpG_sets.html
ab60711ee4db0ef34e02fa53419e866d *doc/RW3_BAM_QCs.R
5e0e1563bcdffdd0db8e722575193611 *doc/RW3_BAM_QCs.Rmd
41b182eef77335f9c64d61d005995fcc *doc/RW3_BAM_QCs.html
f2e00e647821353da86453f66d14d585 *doc/RW4_SNPs.R
7650c7c87bbc87195ac866a809aa8322 *doc/RW4_SNPs.Rmd
18a572cb50383f512e1ecc84a3e06643 *doc/RW4_SNPs.html
02001012e115f6e7db4e0321a6d8fe36 *doc/RW5a_matrix.R
eb1c6a2227b0d5556d0f5598429febaa *doc/RW5a_matrix.Rmd
bee7c60486a0b2b5848f8f3916993f08 *doc/RW5a_matrix.html
23ed5f2b7b2415a50b455992c2a465f5 *doc/RW5c_matrix.R
2c87427ae4ecf628238ab105145c1ece *doc/RW5c_matrix.Rmd
a34f76eb73941a7552d7cfb5317e1651 *doc/RW5c_matrix.html
9202d14904db83547b72bf2334b15191 *doc/RW6_param.R
88d9858ab7d60f741b011e2847efe392 *doc/RW6_param.Rmd
bf1f499ac50c042ef331b4a018caa12e *doc/RW6_param.html
f46288aa3c05c33fcaed97dc76948a95 *doc/index.html
daac74d5592340cb4d0a7c1767dcda03 *extdata/bigQC.rds
00024093426229e222538fcb183ce311 *extdata/cpgset.rds
e237a430f5a97c7c232eabcc64683e48 *extdata/param_file.txt
0c64916b100bc58b26e5760945ba4af8 *extdata/qc_sample.rds
fc8195b250f14110a5ef158e9bc0020f *extdata/small.bam
3cd14b46f0c9dd59cb1357c3a1720bc8 *help/AnIndex
003ac0b03837df574ea0e3a584085f1a *help/MakeBED.html
5661984e6686de2493d48065b72cdebd *help/QCs.html
ae3446f818e9505f3081a0df1bd928bc *help/aliases.rds
5b186d66828fa944cb2b97c8f6d5be45 *help/cachedRDSload.html
019259370045221de47f3e5958a07157 *help/colSumsSq.html
bf7338f85334f958df2d7acd23ae4ed0 *help/estimateFragmentSizeDistribution.html
0992f9a79f97864744cc39ff2b1d72c9 *help/figures/hint.png
bc295fdb2b553bdf55b710e9b716bca5 *help/findBestNpvs.html
18ee08090b3179842d15be2e8654af66 *help/get.html
ef4e8665017ba8ee2f63204242e6f7f5 *help/getCpGset.html
ef4e8665017ba8ee2f63204242e6f7f5 *help/getCpGsetALL.html
ef4e8665017ba8ee2f63204242e6f7f5 *help/getCpGsetCG.html
18ee08090b3179842d15be2e8654af66 *help/getDataByLocation.html
18ee08090b3179842d15be2e8654af66 *help/getLocations.html
18ee08090b3179842d15be2e8654af66 *help/getMWAS.html
18ee08090b3179842d15be2e8654af66 *help/getMWASandLocations.html
18ee08090b3179842d15be2e8654af66 *help/getMWASrange.html
cacb0a32506dc7f34b8c3d52092acc6e *help/injectSNPsMAF.html
32b29c543fda5899b022e761d29e7c11 *help/insilicoFASTQ.html
266037cbce3bcda9733bd46f77a5caaa *help/isAbsolutePath.html
003ac0b03837df574ea0e3a584085f1a *help/madeBED.html
003ac0b03837df574ea0e3a584085f1a *help/madeBEDgraph.html
003ac0b03837df574ea0e3a584085f1a *help/madeBEDgraphRange.html
003ac0b03837df574ea0e3a584085f1a *help/madeBEDrange.html
dd1d8e4c9504da794564299ff1f78daa *help/makefullpath.html
98c9a3a41e6c31161393503fecc97779 *help/manPlotFast.html
98c9a3a41e6c31161393503fecc97779 *help/manPlotPrepare.html
98c9a3a41e6c31161393503fecc97779 *help/manhattan.html
c491af69e3c9ca78fdf448eceb3a421c *help/mat2cols.html
b657e5c513c56a112ff9e33fd8399c65 *help/orthonormalizeCovariates.html
43dbeb93b26d0017b360dacda664edde *help/parameterDump.html
79558c651dabd2026638a519941e54ba *help/parameterPreprocess.html
f898028af15391840733ce2bd71760b1 *help/parametersFromFile.html
a9b13c8d9859d5f8cec135523f044c08 *help/paths.rds
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/pipeline.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/pipelineProcessBam.html
5661984e6686de2493d48065b72cdebd *help/plot.qcCoverageByDensity.html
5661984e6686de2493d48065b72cdebd *help/plot.qcEditDist.html
5661984e6686de2493d48065b72cdebd *help/plot.qcEditDistBF.html
5661984e6686de2493d48065b72cdebd *help/plot.qcHistScore.html
5661984e6686de2493d48065b72cdebd *help/plot.qcHistScoreBF.html
5661984e6686de2493d48065b72cdebd *help/plot.qcIsoDist.html
5661984e6686de2493d48065b72cdebd *help/plot.qcLengthMatched.html
5661984e6686de2493d48065b72cdebd *help/plot.qcLengthMatchedBF.html
28fe0b291a52a1aa1d4829676d987cb9 *help/plotCV.html
28fe0b291a52a1aa1d4829676d987cb9 *help/plotCVcors.html
bf7338f85334f958df2d7acd23ae4ed0 *help/plotFragmentSizeDistributionEstimate.html
af85a4ab8ddabd459a73b448b74ba9ba *help/plotPC.html
af85a4ab8ddabd459a73b448b74ba9ba *help/plotPCvalues.html
af85a4ab8ddabd459a73b448b74ba9ba *help/plotPCvectors.html
28fe0b291a52a1aa1d4829676d987cb9 *help/plotPrediction.html
28fe0b291a52a1aa1d4829676d987cb9 *help/plotROC.html
431ee1cd8d61dcb86efda0820d1c2d64 *help/processCommandLine.html
bb955c23c8b4d17fd5b1c3d3516d1b9a *help/pvalue2qvalue.html
5661984e6686de2493d48065b72cdebd *help/qcmean.NULL.html
5661984e6686de2493d48065b72cdebd *help/qcmean.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcChrX.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcChrY.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcCoverageByDensity.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcEditDist.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcEditDistBF.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcFrwrev.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcHistScore.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcHistScoreBF.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcIsoDist.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcLengthMatched.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcLengthMatchedBF.html
5661984e6686de2493d48065b72cdebd *help/qcmean.qcNonCpGreads.html
74968f52a6ed37c9bf622a2bab81bf52 *help/qqPlotFast.html
74968f52a6ed37c9bf622a2bab81bf52 *help/qqPlotPrepare.html
1214fb2edc16a94c78f9daca28b05d47 *help/ramwas-package.html
1214fb2edc16a94c78f9daca28b05d47 *help/ramwas.html
636f81d01b631ce71feea06f2163bafe *help/ramwas.rdb
50cf1a6732a3bc84b59de3de589a53fa *help/ramwas.rdx
0ac886a59b5ae5e86ab65c179e6c6ab6 *help/ramwas0createArtificialData.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/ramwas1scanBams.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/ramwas2collectqc.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/ramwas3normalizedCoverage.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/ramwas4PCA.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/ramwas5MWAS.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/ramwas6annotateTopFindings.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/ramwas7ArunMWASes.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/ramwas7BrunElasticNet.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/ramwas7CplotByNCpGs.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/ramwas7riskScoreCV.html
2932445652efed0088268c8a140b71f6 *help/ramwasAnnotateLocations.html
2ca7a71f4efcc2814a5fcd40c41ac15e *help/ramwasParameters.html
f85ecbd4ef603f2b6e55dab14ab8cb55 *help/ramwasSNPs.html
019259370045221de47f3e5958a07157 *help/rowSumsSq.html
019259370045221de47f3e5958a07157 *help/rowcolSumSq.html
2a8b6e7193d6245a642f314f18338651 *help/rwDataClass-class.html
2a8b6e7193d6245a642f314f18338651 *help/rwDataClass.html
89251d4938c1a6adc5622f50e036c04b *help/subsetCoverageDirByLocation.html
89251d4938c1a6adc5622f50e036c04b *help/subsetData.html
c7fa0a01d8e5620a572fbcd3cb866b67 *help/testPhenotype.html
92e73258582f57b8258a53d251aeae19 *html/00Index.html
20dcf3c910969df933eb12d4d2e3fc5d *html/MakeBED.html
8049932efd8779125bae40d1d501684c *html/QCs.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
9e56a76bbd7b2c15e4dc8d707eb5b64c *html/RaMWAS.html
90f13d8136aae12834d10ef1137f0ce3 *html/cachedRDSload.html
ba2dcb803883f0c4650d6f6e6d3912fa *html/findBestNpvs.html
d661ffdea95c071b471d9d8cbe10c1d2 *html/get.html
36ff8f0e97ca0aecf1799cf47491338d *html/getCpGset.html
97d3332136772810cd6e8c9102fe9d69 *html/injectSNPsMAF.html
321c03c78b95f3df66c2e94634cab8ad *html/insilicoFASTQ.html
e76011f43d9f37f6c78374c264b64f73 *html/isAbsolutePath.html
c0378c10fd495538254954db802916a1 *html/makefullpath.html
cc5f79e191fe65aee2fb2ab22ec9273f *html/manhattan.html
4759ab9e784753846fae783bdb8455ac *html/mat2cols.html
75a95cbae4be27292904f85f12c6c1ec *html/orthonormalizeCovariates.html
fa147b75e5b6e11f08f3c850e48caa26 *html/parameterDump.html
3f528a3752b9f8064fd8e5f7190ae42b *html/parameterPreprocess.html
7d7ad7eeef40b82d37f3f4a69e89dbde *html/parametersFromFile.html
0434c711aca828012227b52b9aa81b7e *html/pipeline.html
bc22573c2d1ba764eb348a5955ba379c *html/plotCV.html
d6cc653692443161c5ec599ee6c391af *html/plotFragmentSizeDistributionEstimate.html
72145d73b6059b8dc9eb57fc42d1a3d8 *html/plotPC.html
057427da573f111e0302771970365c0f *html/processCommandLine.html
12935500456d6683fccf17b3714918f2 *html/pvalue2qvalue.html
ac389fe48743d740d8e88b877b95c9bf *html/qqplotFast.html
c38d389c3e860425cced48e7122c4067 *html/ramwas0createArtificialData.html
e7ad84664fab28870550d43a87500384 *html/ramwasAnnotateLocations.html
084e71b0c6e5724139fab85e01f730f5 *html/ramwasParameters.html
a0a567e3205b4ec34d755c42e9432f91 *html/rowcolSumSq.html
843b78d13ff318d2a2dfe1955b71f345 *html/rwDataClass-class.html
141c1bbc9eacb00009131391212a0735 *html/subsetData.html
465d10df97e79a9b1329287142be2356 *html/testPhenotype.html
d6a7ce5b7bc14c14741d0dc8cf3fe1dd *libs/i386/ramwas.dll
6cc28d2918c9a7e86fcdeef1fff8c4bd *libs/x64/ramwas.dll
