767e94e86a0999463e3e18abd86cb4d6 *DESCRIPTION
b8ecc4c795822af17dabb0cf25c54596 *NAMESPACE
f77e5430569c792149b7596240caa1e5 *NEWS.md
cb5ee9bd34b8cba1c96b6b3fbd568de8 *R/CpGindex.R
7893360bd6d829f08495abb910a88191 *R/RRBSeq.R
6ec26193c2267872e73818d0723bccd4 *R/WGBSage.R
79381529934ee8f5eb3bfc02dd862399 *R/WGBSeq.R
b9859e6ce4d12cc1e02c3c93df6b352e *R/atRegions.R
82d647fcb82655d75565d9a76222e6c0 *R/binCoverage.R
5491d2abf33704f21319b44aa38bd360 *R/biscuitMetadata.R
7b9e604be81c1f565b7abe5ab6a60d9f *R/biscuiteer.R
3a9f8f9d0e2a79fe042a342f6516faf4 *R/byChromArm.R
17e5ca78550c356d85b96970b245fb41 *R/byExtremality.R
3bf01bd15d7fcc827a615309992f361a *R/checkBiscuitBED.R
af9204256ec5b39055452668fc4be70e *R/condenseSampleNames.R
a419cff4272dd87330f65a9dd80977e7 *R/data.R
28a33faf3d4ea51d2af6657505e3709e *R/extremality.R
b8610daa440958aeeab943f6ce09d4b0 *R/fexpit.R
725f4daeed2c8a2d7a7123dff0378b58 *R/filterLoci.R
9c5eb2a9d7152fcb1ec1edd30fb01b90 *R/fixAge.R
2f5e0352a846aea9c484cfbfffeebb97 *R/fixNAs.R
682cd4174222ad1c1b6f0135721ba0b4 *R/flogit.R
5cb6e09c06b735800352af440aaf0385 *R/generics.R
b07d51ec0d8d6ad7702c602c10505bf7 *R/getClock.R
8c306169b9c66d73db46a466b747e991 *R/getLogitFracMeth.R
06c9c6ededf83f4814ec1690380bdba7 *R/grToSeg.R
1069b371bdd4b639f152d006afe6c5cc *R/makeBSseq.R
d7699658dfff0d1d1e45db0e2e9e9ba4 *R/readBiscuit.R
70d1f253c2eba4863fe1bf5a131935f3 *R/readEpibed.R
fd30b131b512e3ede748f5971abae7c8 *R/segToGr.R
7de7e0e6e9abfb837c5c61d1477b6509 *R/simplifySampleNames.R
8336742f074f70a3cc4ff124af1322fd *R/summarizeBsSeqOver.R
5918e2f81535809251cbce2c4e25277d *R/tabixToGr.R
89718a91d87180355e4d1dd2f7db64d4 *R/unionize.R
f9ef41669297668fe4fbd27fc4fd4ba0 *README.md
a13a6fb7f86993876708ddc9b2b05c86 *appveyor.yml
2f1628eb77a10e1db33597a83dcbb462 *build/vignette.rds
c6ebaf0d191bffc2cfb5ed2953450da1 *data/ENSR_subset.hg19.rda
b22184224e38cf6f1e8d62e59808edca *data/ENSR_subset.hg38.rda
317485696f3b317f17dc7d4137590d28 *data/GRCh37.chromArm.rda
4b443f99756949d7c5d5c288e33455a9 *data/GRCh38.chromArm.rda
f7e61f1d0b603cc64dd0f0b47d54633a *data/H9state23unmeth.hg19.rda
f9752e752e79e410dc11e2cc281ec358 *data/H9state23unmeth.hg38.rda
58bda9de886684b84b2317b999ba9d7a *data/HMM_CpG_islands.hg19.rda
ae5efc4c8c80aa52fe67c44c13d73558 *data/HMM_CpG_islands.hg38.rda
3279b939a7b53ad38387447c4c9d2313 *data/clocks.rda
6c03c506fd27bdef481bb6d3a85a04b2 *data/datalist
c954557fde09e407f258094f2f9f4612 *data/hg19.chromArm.rda
814bbce33521f4546b500abaf1869448 *data/hg38.chromArm.rda
b6e4e4db1ef5838a88d1510221c32777 *data/seqinfo.hg19.rda
cd9fd1521718f84dc72b8ce64b9a5d7f *data/seqinfo.hg38.rda
d1226704e76cb1fcc92b52443320b337 *data/seqinfo.mm10.rda
ee3393fd226ae5f09494235bc9a5fd93 *inst/doc/biscuiteer.R
b7ef5a4c6c7531ad5215c7246c7c8f9a *inst/doc/biscuiteer.Rmd
2de31c48b501884ce933af6564971c8a *inst/doc/biscuiteer.html
c23610da27f6b7c82fdaf2f7427b43fd *inst/doc/biscuiteer.md
31048ae3d0a6b7953760336e638b86b7 *inst/extdata/MCF7_Cunha_chr11p15.bed.gz
1971254c2e0f420e04d8119174949b1e *inst/extdata/MCF7_Cunha_chr11p15.bed.gz.tbi
57b14e8560ff1cde06b7578b688f20af *inst/extdata/MCF7_Cunha_chr11p15_shuffled.bed.gz
d6ff9139c2cd7728430fa6d969fe124a *inst/extdata/MCF7_Cunha_chr11p15_shuffled.bed.gz.tbi
61309ab54074516a5b2973f632687741 *inst/extdata/MCF7_Cunha_header_only.vcf.gz
d80cf4090040c37259bf284f3249834b *inst/extdata/MCF7_Cunha_header_only.vcf.gz.tbi
cfb4a86e6b86ced7a5bce1e63ac54a11 *inst/extdata/MCF7_Cunha_shuffled_header_only.vcf.gz
7b2b4a379f80df3f17e729eb04075171 *inst/extdata/MCF7_Cunha_shuffled_header_only.vcf.gz.tbi
cca3b590ed70e843b03402e2c0fb4cfd *inst/extdata/hct116.bsseq.epibed.gz
c8d2751188c4b54a8de8cb5e7ebea4fc *inst/extdata/hct116.bsseq.epibed.gz.tbi
1fe5d14a2f14e2d8a6e0c6b6b6d024f3 *inst/extdata/hct116.nome.epibed.gz
1775f391e177f031c712c38912d94982 *inst/extdata/hct116.nome.epibed.gz.tbi
39c1310b90fe5a0de192833a7df9f3d7 *inst/scripts/clocks.R
73a881932be92dd2a1594cbef6303e4a *inst/scripts/extdataDescription.md
62b582af8bfe316884406f04f44d7606 *inst/scripts/genShuffledMCF7CunhaBed.py
e665c78b58440ec5113e8dce3ebc5894 *man/CpGindex.Rd
e6bcf171048c69bba0951a6827080d62 *man/ENSR_subset.hg19.Rd
e4955c86965993a0877841b8715c3cee *man/ENSR_subset.hg38.Rd
5ec85c8cd851bd72c4c88402e90f9e94 *man/GRCh37.chromArm.Rd
5dcdd0f6fe93b9774e017fdaf3b08359 *man/GRCh38.chromArm.Rd
45c4754c292fb5a567e78b920ab83cb8 *man/H9state23unmeth.hg19.Rd
cd73b4641cfc519d1a7f220b4b4c3f8c *man/H9state23unmeth.hg38.Rd
109c0e0a40142eb19f5c2304d7d427d2 *man/HMM_CpG_islands.hg19.Rd
6733832542ef887e21016749f31baf07 *man/HMM_CpG_islands.hg38.Rd
2cf101a8b2649dbfe7810c4edd4d0193 *man/RRBSeq.Rd
33f7ce779d7402f73719c69ec49a2d83 *man/WGBSage.Rd
40c17d78234c1a567e65487c3ddd73f5 *man/WGBSeq.Rd
0319ef176c0ccba517e312ee371e1bba *man/atRegions.Rd
5c31a3559e9065272f7d618bd3ccf2c7 *man/binCoverage.Rd
2204b781b529970c200c8b5792335ae9 *man/biscuitMetadata.Rd
40dacc7f1bb44e414250c4d3202bd9c4 *man/biscuiteer-methods.Rd
7d7ec41d70aa1b6fcda83e8425e874dc *man/biscuiteer-package.Rd
1527863386b80a9c52aac686efe6b4f4 *man/byChromArm.Rd
dba71ea7185f93067b0d460f1608337e *man/byExtremality.Rd
5aed5cecd91825cff876c6ab0226df89 *man/checkBiscuitBED.Rd
c043d2f6491464f9eea2d2a505d261c3 *man/clocks.Rd
9c0add201bf4c4fc228aac3ee02f11e8 *man/condenseSampleNames.Rd
16172cd5ea9560fe70e9cf0806c7dfbd *man/extremality.Rd
0d4c1d49671c9492d1f0b0aa2ec77df3 *man/fexpit.Rd
7f2d667fc1c6e348811379b33f80d819 *man/filterLoci.Rd
cf0c7c2dc08a6705cdccfff1de0b5f77 *man/fixAge.Rd
72e2615933ad3fccdac96505622b5a31 *man/fixNAs.Rd
fc10f44d48160fc67e3fa5dbdd39b409 *man/flogit.Rd
c67b05bf549303315d4b7eaa6cd033c7 *man/getClock.Rd
ce0d0f25a112c11946c3e6f0fddf5aa8 *man/getLogitFracMeth.Rd
977637c6748d6efb553ea3c0a0f8f2de *man/grToSeg.Rd
ce6a7299c8af07e8a951ae03736fad41 *man/hg19.chromArm.Rd
1fba1d82b90fb2f6c1f2aa5b3167e7fd *man/hg38.chromArm.Rd
9d2a619689867f43418b11edd6ffef6e *man/makeBSseq.Rd
0d1f8c527ca1ccb0bda9dd0d07d94b3d *man/readBiscuit.Rd
aa554a31c0fd5bf24e8174f18fddaad2 *man/readEpibed.Rd
b847fb1a609f81a82d81955d1e9d3c19 *man/segToGr.Rd
b40e33fcda85025f9cb1952b0ec5cdf6 *man/seqinfo.hg19.Rd
7c21ca0ab3c4a80d9a6b0ecdcdcc0ac9 *man/seqinfo.hg38.Rd
318e854f8090455dfb7e5520fb3d46d4 *man/seqinfo.mm10.Rd
39cfe49a6f30d5480852c651fb150d4f *man/simplifySampleNames.Rd
c3f6e3231a472ce36f662b616d90e52d *man/summarizeBsSeqOver.Rd
94d717fc7eba66c68d8a1e565fb18f40 *man/tabixRetrieve.Rd
656ed0e37c163be5797c3903b9ca60a8 *man/unionize.Rd
7ae839512292d1cb679d1628e6e68e46 *tests/testthat.R
4812dac84fd53d917524e29822458400 *tests/testthat/helper.R
7b8b2a586da5db3ba216942a0bd0071a *tests/testthat/test_byExtremality.R
b7ef5a4c6c7531ad5215c7246c7c8f9a *vignettes/biscuiteer.Rmd
