e7bbe78b429c7a449e7f2d8f2808f410 *DESCRIPTION
e369f7474aefd24bffb551177843f8c8 *LICENSE
9b097ee599dc5e8a6918dcd5687250a7 *NAMESPACE
cc63e9432fbac217215caa06db2b398b *NEWS.md
f0041e34d34c7b3645bd3c7ac2c40b79 *R/bamutils.R
67fd48a86201c1f14154db22ec0d5cf3 *R/data.R
cb95898b177faecef2c07a8e450e6ae5 *R/footprint.R
20967627c8855d1861a29f7bca82cfdb *R/fragsize.R
a38921dbab4b34d0b38a1822f21f92e4 *R/globals.R
957d4613f243c68e8de1ad1bb7aebaa4 *R/nucleosome_enrichment.R
37882907b0fd1bc723431e28a4cd53fa *R/utils.R
77a17a754246dc9d4bd3ae8b2abc4b5e *R/vmat.R
407d296bbbbe0bc7b3b6a7736ef6029f *R/vmat_utils.R
aa6bc44187e3c941621312c6862f31e5 *R/vplot-chroms.R
6230645161d8832068df8693ede2b353 *build/vignette.rds
48dcb1310779ae812b969fc367d4a568 *data/ABF1_sacCer3.rda
6331f76be8bbc301f3227246703f25ca *data/ATAC_ce11_Serizay2020.rda
dc64fa7ef5567629d88893a2ba31af9a *data/CTCF_hg38.rda
5963838a4125b5dd5e323f9b700ea840 *data/MNase_sacCer3_Henikoff2011.rda
b87b43ffbe406292cdef2b313c88c2cf *data/MNase_sacCer3_Henikoff2011_subset.rda
980058666deb7b864b9f9390ec349087 *data/REB1_sacCer3.rda
0736cedfd1c91b8aad8eeeda152f8288 *data/bam_test.rda
461a953f9862a4e5c6e1fe2f3aef1b0c *data/ce11_all_REs.rda
3148c909fa69f3136852fca2b843d6ca *data/ce11_proms.rda
1e2777e7a1184dc1d0960f99b5e37aa0 *data/datalist
fe781d6b479cec683bbe70a102bfed4e *inst/doc/VplotR.R
79a0df1ebbbeff079889de756a6dda86 *inst/doc/VplotR.Rmd
b330c43f45644eb5b694c5b764d99a44 *inst/doc/VplotR.html
a6200488b49e195ca843b84ecdaa26c4 *inst/figures/concept.png
8a0cbce41ffea38cf2b6cafca1dbae4e *inst/figures/fragment_size_distribution.png
4b5e568d48ae6b798e3dcf29c822d1da *inst/figures/logo.png
4b904579fe607ce576f6f1bb226ba7d7 *inst/figures/vplot.png
cdd7d51f684bf78b8474eb0270106c84 *man/ABF1_sacCer3.Rd
716bdcc8f7ade68d3bf91701074f493d *man/ATAC_ce11_Serizay2020.Rd
d5e29ad5b92f5b5dd2e8423177209b85 *man/CTCF_hg38.Rd
2b780ff1d4e587fba18713ce8f21ddba *man/MNase_sacCer3_Henikoff2011.Rd
4bebb070d71f71daa9e2abe716ece9f4 *man/MNase_sacCer3_Henikoff2011_subset.Rd
1845d91db3d2a4303f9262ca5ac2f317 *man/REB1_sacCer3.Rd
087aed4ecd99c900b1d592515b3022cb *man/alignToTSS.Rd
904c459a96d9fb7de5cc0967095346c6 *man/bam_test.Rd
2019b396da54bbcbd45c3e2c02217199 *man/ce11_all_REs.Rd
45d072125be0cd4c458b643e784f02df *man/ce11_proms.Rd
766b09565b70d33a3dbcbb1f4f7e45cb *man/computeNucleosomeEnrichmentOverBackground.Rd
f7b1bc61d8f923de83ac7096902d6f95 *man/computeVmat.Rd
4192bbf2fe6364f7d45b2da4165e10b4 *man/deconvolveBidirectionalPromoters.Rd
19939eb5bc9450d5e8f615fe1a0b62ad *man/getCuts.Rd
403e5c77063be4331f588b005357529e *man/getFragmentsDistribution.Rd
c56821553c703e6cc7f1113d1fd4d81a *man/importPEBamFiles.Rd
ac4f1989fcfbad7cc04b728c1f332fd5 *man/normalizeVmat.Rd
70a2a5bf7ce30b434e2ede788caa7aef *man/nucleosomeEnrichment.GRanges.Rd
1321d769f009ddd4fd757ae20153df37 *man/nucleosomeEnrichment.Rd
89e6ab98fb298586ba03bd20d5e1ff24 *man/nucleosomeEnrichment.Vmat.Rd
0da47fc507c846dcb9f586c6ca3a8fee *man/plotFootprint.Rd
4fa5145de4328b69c98d63847e4318d9 *man/plotProfile.Rd
2e63e626f73b2b1c7c5d9ca629488bce *man/plotVmat.GRanges.Rd
4595506a50d74dfb8dd968bd131931a9 *man/plotVmat.Rd
c94c869ba28ac5b4b69147ffa6c9ab07 *man/plotVmat.Vmat.Rd
fcd736e56c9475b6e94c47006567e83f *man/plotVmat.VmatList.Rd
a6b602f9787a8dfd6d9af044b996c8ee *man/plotVmat.default.Rd
5bace6d2d3e66ff4c976a450ea1b0ec5 *man/plotVmat.list.Rd
67262716654e24acc7532f61e8766d10 *man/sampleGRanges.GRanges.Rd
b9d7443c5c7bb0dd01de3067ab13e298 *man/sampleGRanges.Rd
6eb7624a3bc6fdaa369d39965c873bff *man/shiftATACGranges.Rd
0733d93053618a86f963502137b86272 *man/shuffleVmat.Rd
10de6de680b5fe1d82d1cb7098e81d7a *man/theme_ggplot2.Rd
b48e2ade42bf9d992a51dbac89aa2d44 *tests/testthat.R
6f9dfd6a910489303859515d455d044b *tests/testthat/test-nucleosome-enrich.R
a75f6a88b3617d04f3b6dd8fc78145e5 *tests/testthat/test-vplot.R
79a0df1ebbbeff079889de756a6dda86 *vignettes/VplotR.Rmd
