9bc4174bad9e78998b3d9c4042882b29 *ChangeLog
4fa5292ad5b1db9f27bbc8fe45c6ff87 *DESCRIPTION
c7462a323bcee1fe441b00dd233ca5fe *NAMESPACE
38e34d004ec013a2aeb80dc8daa74559 *NEWS
78bc78e5797573033833f14f069a8c3e *R/rbamtools.r
a3bd08dddfe89bc47ac1543942418a69 *build/vignette.rds
2c71bc9e2bd62cf408ba8f36cd414568 *inst/doc/rbamtools.R
0c6c7941d460e984eb4ca2e7a033ca0f *inst/doc/rbamtools.Rnw
d92f765a43aedbe7cf9377b69ff45f89 *inst/doc/rbamtools.pdf
70636a08b868d8feda7dcb0ad4fd7d7b *inst/extdata/accepted_hits.bam
e402625fa157476dfcd67273bb0f7384 *inst/extdata/accepted_hits.bam.bai
6927ec49f8bf9cc7316d95eb131dfda8 *inst/extdata/test.fastq
ee7b15dcdff08f8f615afe2a2154c6fd *man/alignDepth-class.Rd
6ab922048f9db7b14b34dd43ea4eddb6 *man/as.data.frame-methods.Rd
041101903667f1c0b526ed053d7b6d76 *man/bamAlign-class.Rd
026d965361124fe08de4a3ed29befccd *man/bamAlign.Rd
834772109d6ed6bb079c0adc90241a25 *man/bamClose-methods.Rd
8c5dd113d383f23592fd98884e55b25f *man/bamCount.Rd
1cab1d5a152e0b41890015481843ccf7 *man/bamCountAll.Rd
10401ae9befdf2bb9ce449e61752327e *man/bamGapList-class.Rd
f49636d06e63579406a31f6afebd0259 *man/bamHeader-class.Rd
38d5360cb908c6907b17d1d5844a477a *man/bamHeaderText-class.Rd
aec60a315138191748c1d5ad4960c886 *man/bamRange-class.Rd
b4abd295649cfa30f220ec2b467186b5 *man/bamRange.Rd
37d4151f4179b609d469d37d13edf2fc *man/bamReader-class.Rd
03c9354d0c9cd87f5d65a5e9424ea7c5 *man/bamReader.Rd
6c4813e62d97dc403177441f3285ff49 *man/bamSort.Rd
90705161da5b78dcd2577f079de72fb5 *man/bamWriter-class.Rd
71bcc618419f3270ef14a1dcdc88a11c *man/bamWriter.Rd
107ad3a6c46a08f814c495b22ea7faf5 *man/countNucs.Rd
ca79a0b147641bbafd4af13c8692f399 *man/countTextLines.Rd
4d82952ca9cacd932a55dbfd02eecf52 *man/create.idx.batch.Rd
2b3b3958bd28432ff1ce9efddcdf59b9 *man/extractRanges.Rd
d02d631ce7033fa6ee91860508aa10dc *man/filename-methods.Rd
673c65c1574a54469f96be58a19705c7 *man/gapList-class.Rd
1a2d4d0a9aa764e4713c17e2066d61d3 *man/gapSiteList-class.Rd
51c82816b832dd64ebe7fe015bc69cd2 *man/getHeaderText-methods.Rd
575e6401e1a4fb3b77eca501bcfd239f *man/getNextAlign-methods.Rd
764e2bfc5169e142cf60f878ac9e654d *man/getQualDf.Rd
5c9e2b094da1229aedadbc40451dd517 *man/getRefData.Rd
61ece04498943dd1a861bf0b6dc575e0 *man/getVal.Rd
ed88cdfa7a2aa82995daf3100a13184d *man/headerLine-class.Rd
e746e233be84d9ca887d3f5dcd81bead *man/headerProgram-class.Rd
5a0f2d835902efb80b9669e0a4fbac7d *man/headerReadGroup-class.Rd
a0980a4317e856c779589bd9d2a86794 *man/isOpen-methods.Rd
62165aa6c1d6cd5d18b0a1649d22b42b *man/nucStats.Rd
e6fb0f3637c467dd1e71ed8b43b4f82c *man/range2fastq.Rd
46a3bed4a8805964cde4772e76b82398 *man/rbamtools-package.Rd
6609cee73dba1f67ff87c8e87be9cef7 *man/readPooledBamGapDf.Rd
911be680cf9a4fb08c6ae3bcdf02291c *man/readPooledBamGaps.Rd
b780f74ac9fb23124f06cf7a365bd7ec *man/reader2fastq.Rd
9c222e0b4daa9244c8100bb28d26a8a2 *man/refSeqDict-class.Rd
bb61babfa2eb94a8095a299572d405f2 *man/setVal.Rd
1909330c349a0b8654595c7accb89fb1 *src/Makevars
b2ab8d847907bfe5f92a3c04cdf4d2a0 *src/Makevars.win
99f3b75624c4d39b4228878b091f8439 *src/align_list.h
cac06aa5431afaf6491475f9ea8823a4 *src/bitmask.h
a0ac55c2d8285dac5fb3b78c22f6d2af *src/gapSiteList.h
e8c75a5c41400948b3574b30778e4aea *src/gapSiteListList.h
d41ca279519e94b38ba57508a73540c2 *src/gap_list.h
809999424f90f1c0b5f736d1ca1d4012 *src/rbamtools.c
251a96029099bd5e82fbc715037cddb9 *src/rbamtools.h
2e4c02f66ddf5b45e5f82ff579740386 *src/samtools/LICENSE
23c9b76a283050fa883cdad563c2ddf1 *src/samtools/bam.c
b93c29c5e3d3d3984ada87ee72f3e8c6 *src/samtools/bam.h
e83437966ea850ce728c7464829c4e4b *src/samtools/bam_aux.c
f7cefb3e7547d4e411f9ea11cd69754b *src/samtools/bam_endian.h
54497f00431189eff6fa691a2c67ab04 *src/samtools/bam_import.c
a44ce4f09609b5166a5e50875ae5127b *src/samtools/bam_index.c
d9e850fd4c45aea2b16f3c414653fa37 *src/samtools/bam_sort.c
b4a65020d204657209e2f2e350bf3636 *src/samtools/bgzf.c
86d5cb10e9aa3142f9ce23bfc95d72a0 *src/samtools/bgzf.h
f0b28f833b42283648305b1e22bcdfbb *src/samtools/faidx.c
4cb1218daa2c840cf4433f75ed1fb63b *src/samtools/faidx.h
3c669fdbd041832bd5e7e137cc83cf95 *src/samtools/khash.h
955405f73508c3f12c7292bff32ed39b *src/samtools/kseq.h
24ef45db4e129ff34aa982837cc48f7e *src/samtools/ksort.h
55910d3ccbc5c155f4e0d9d1b6899480 *src/samtools/kstring.c
6f641b01f25a2531f39b6fb0a24143fa *src/samtools/kstring.h
bc06d018f2753a4ed00d49d2036d02b2 *src/samtools/razf.c
f811b63e4de097b427ad3d23d91e5c3a *src/samtools/razf.h
0d25499fd34d14ca3544e81f4c2775e0 *src/samtools/rdef.h
b1a99b6b2a0d8a6af94c38167f8077a5 *src/samtools/sam.c
eb06482d20c8cbceead50f119c2a0229 *src/samtools/sam.h
9d9bfd529368210ce4287e24379a29f0 *src/samtools/sam_header.c
d07492fd02fcbcddeb159e19b7bc22f3 *src/samtools/sam_header.h
a34ef9d29440a081751fb722627971c0 *tests/test-all.R
0d6ec743d9d90c46faca6486755f8c39 *tests/test_bam_range.r
0c6c7941d460e984eb4ca2e7a033ca0f *vignettes/rbamtools.Rnw
12cf02a55ccb202a363ad51c771d51cb *vignettes/rbamtools.bib
