cf4250328179475941461d67e085f7e2 *DESCRIPTION
c1572db10ded1e718aa2ce2a8a8b5bfc *NAMESPACE
ec9962d0af89292fb1face729f0b8f2a *R/AllClasses.R
128c2217158bb87ab5c60e2c82c334a2 *R/alignmentClass-accessors.R
594dd0eb2aad09a38eb74586a42831b6 *R/alignmentData-accessors.R
de6bc8c044ac561ae95513f4b3e41a4f *R/alignmentMeth-accessors.R
b2810c9c68f5e75bc0602b52ba77de2a *R/classifySeg.R
e2fa88c7b08345562941e5ed778b382e *R/constructNulls.R
5b856c8bc212ba63901f6bff89f91d3e *R/findChunks.R
2446fa33418d78ed1721607fde91f458 *R/getCounts.R
ba0a1683041a2f6bd6339a5557b42efd *R/getOverlaps.R
36baa06b34d7195c1dc0861fb05acb79 *R/givenExpression.R
3d134656c89bf298721e73e575a93b19 *R/heuristicSeg.R
6a6e067fcfb1a02bdd2d7d564bf2e7cd *R/lociData-accessors.R
a7179b9667557bb85a6d426481cd2b4a *R/lociLikelihoods.R
326830b450a608445a410b490a1c96d8 *R/mergeSegs.R
ba68f052f772873a4e0bbea7919293e9 *R/methData-accessors.R
3c20763c0e642dc4de8545a7bb3c0699 *R/plotGenome.R
7b466683d4fb181f53a7bfba10dfa2e0 *R/plotGenomicDistributions.R
a71b019497619e1941b04048c21e8019 *R/processAD.R
d774c27588013236fd0bd180e1580a98 *R/processPosteriors.R
ded3180b9b6000bd0ad5d9616b53f4cf *R/processTags.R
08d5be9be6b990ffd9405fc56b5a1c5f *R/segClass-accessors.R
4eb593897884f527db7436deed9b58fc *R/segData-accessors.R
60628e2dbe2124dbf16a96a961f61fd4 *R/segMeth-accessors.R
bbceed203941c1fa536aa375a308b7cb *R/selectLoci.R
67a52391fb4aaca8597f5cdf654c275b *R/utilityFunctions.R
a160f54b7d09656d8c06c6b9e934f56e *build/vignette.rds
c5f6004bc549e314e05274189043d45e *data/hSL.RData
6c7a35f8409060ee4a977f4049d3305d *inst/CITATION
4a1bd5c3f6c9de3c37b6856e75b12a9b *inst/doc/methylationAnalysis.R
baef1adc4dd33d9fb07df448fb3c3dd3 *inst/doc/methylationAnalysis.Rmd
afa398966a27feb654ceed8dc989c596 *inst/doc/methylationAnalysis.html
f1e2df1a0499842dd71450e18c5ac787 *inst/doc/segmentSeq.R
f8eb8eaf73ed82ce6a46459132e03c80 *inst/doc/segmentSeq.Rmd
f9d5c4d1ce10c1d0f01acf37ffb12eab *inst/doc/segmentSeq.html
3e06d773f7fc796b9f8abfbd87859c91 *inst/extdata/SL10.txt
d4614b7e3a4b1d43982ddfb5756b3c55 *inst/extdata/SL26.txt
b743c46dcbdbebc79f25c8402c664099 *inst/extdata/SL32.txt
557c9c052a14cbeb5794a5d40520ee98 *inst/extdata/SL9.txt
f9e97daa13b3f4e7b2554cfc838e20b6 *inst/extdata/short_13_C24_col_trim.fastq_CG_methCalls.gz
6202ab9dfdfca80c02a65f4e6bb528fa *inst/extdata/short_18B_C24_C24_trim.fastq_CG_methCalls.gz
67b74bf8edfa841d34a31dfd467c8c3f *inst/extdata/short_Sample_17A_trimmed.fastq_CG_methCalls.gz
87ff08b3a90565b2d8b826373e30dc0e *inst/extdata/short_Sample_28_trimmed.fastq_CG_methCalls.gz
115118e47432fa8e9cda2a1973de0b6b *man/SL.Rd
c15b1bd3c2824956d342c87ba11e1d5b *man/alignmentClass-class.Rd
3778c614227adbe90b9311ae6fbbaca2 *man/alignmentData-class.Rd
0d777a5eae892277275055137c50a704 *man/alignmentMeth-class.Rd
d4a76ccd617922d69b7b38e0f66e673f *man/averageMethylationRegions.Rd
fd6a9d33d69d56ad220cc567edf672d3 *man/classifySeg.Rd
f50138ebf06dbbd65fd84390f9d195f7 *man/findChunks.Rd
0f13b53cf44fd702d7fcaa7894397538 *man/getCounts.Rd
3d21e44b0d54df686be90fa40177f9fe *man/getOverlaps.Rd
85597d08fb9d6147abc2b20154e34912 *man/givenExpression.Rd
3f0a234ceaa41c7cc9bc8944774711cb *man/hSL.Rd
89ebeceb269521b12ce5c447bef5d63d *man/heuristicSeg.Rd
43e0cea80c493ec2fe36a95d777cb616 *man/lociData-class.Rd
be3f4cddcc7faf2bfb94b193fc5a621e *man/lociLikelihoods.Rd
f69ae906e636e24ad6b7c315b0191dff *man/mergeMethSegs.Rd
3aa3dcf6fc3b15b8edd3c792a1341e88 *man/methData-class.Rd
ab396f7461190bcc9a282f326d973339 *man/normaliseNC.Rd
bf417ceba99c3a3294882c898d8838b4 *man/plotGenome.Rd
f5d19a6a4c9037becac33b492465cb67 *man/plotMeth.Rd
1224bfca72f0bb52a1583d0726b94541 *man/plotMethDistribution.Rd
96bcf222b59aacc5a04374a29f81aa8f *man/processAD.Rd
a776a533f942de100a79c2030ed9c262 *man/readMethods.Rd
d11011114dea0581d179efd9ee8ffd14 *man/readMeths.Rd
d080ea64769af2dca60d564966cba2a2 *man/segClass-class.Rd
ddedff32d2cdd20f5faee13a45f3246b *man/segData-class.Rd
96e20d8029319620123a8b3d77cc7bf6 *man/segMeth-class.Rd
cb0c15bde6be03fb4473de83ffd49243 *man/segmentSeq-package.Rd
13bb1092f4dda2a7a9ebb6f6f8788ac8 *man/selectLoci.Rd
4035b082d447178e9b8f1fbc3bbd054e *man/summariseLoci.Rd
816b6419d99bd853e2f264ee1b0db120 *man/thresholdFinder.Rd
baef1adc4dd33d9fb07df448fb3c3dd3 *vignettes/methylationAnalysis.Rmd
f8eb8eaf73ed82ce6a46459132e03c80 *vignettes/segmentSeq.Rmd
