bcb46671f9de67f4c98c54cd2fb7b0a6 *CITATION
ac691ac94a5a2a33eaa716fb31c1b5b0 *DESCRIPTION
d7bef1091553b8d404d3cabd025ccbfc *INDEX
d5610de4add6b81a2ae49f19db8a038d *Meta/Rd.rds
1d15b8cd6573641f81c4126b0438e9c2 *Meta/features.rds
fddaffff2f27b9114544de07e4c8ba43 *Meta/hsearch.rds
a7e9ce36f099a27d3b85863e14dc9624 *Meta/links.rds
2e3bea439df566d9e0ca52071a232329 *Meta/nsInfo.rds
b322e6461c52fe3834d9c4e781b7844e *Meta/package.rds
756e99548f24ba14b76d6672e60d0aa3 *Meta/vignette.rds
be218ab5f8593f82380357fb87629d5c *NAMESPACE
71272305b5e536bffb0f66f61023aaf5 *NEWS
d6c68f1fe41ced6e98a766a3757313da *R/GenomicAlignments
c1c1d6ea898a01a991a6fa7fe984b212 *R/GenomicAlignments.rdb
99901d58c449ddab1fa8baf0b2df1499 *R/GenomicAlignments.rdx
87c1aee70a53b2832ae0a7b1d1ea22d0 *doc/GenomicAlignmentsIntroduction.R
6e39e7a38e67414501fb32634a4052aa *doc/GenomicAlignmentsIntroduction.Rnw
f5d4b514449f9c43adb8d3bea2996efa *doc/GenomicAlignmentsIntroduction.pdf
0d307bd84b97e9958f7d683066cc6792 *doc/OverlapEncodings.R
68888481e2bba183e3408e111907d416 *doc/OverlapEncodings.Rnw
23da178a71bdc6410d35e9a91a92baf6 *doc/OverlapEncodings.pdf
fefe6ab83378e1021ae62b51ca854ef2 *doc/WorkingWithAlignedNucleotides.R
7ffa5eec2eb7b955ca22579bb869bff8 *doc/WorkingWithAlignedNucleotides.Rnw
d70c7a89cd53ddf0a233454d8d7565fb *doc/WorkingWithAlignedNucleotides.pdf
f3fa15b65377aac5ee9c663f6bd9e203 *doc/index.html
1c40ffe1d41ef7d3f3821184383ae85e *doc/summarizeOverlaps.R
5398e425480c1f764c0dce679bd32525 *doc/summarizeOverlaps.Rnw
d99002eb24edfb65496e156bac807e92 *doc/summarizeOverlaps.pdf
1c380f8159fda8fad5d0d4902ae9ea23 *extdata/sm_treated1.bam
af83f784077fcced98e3603bb7ad7a4e *extdata/sm_untreated1.bam
e94a8615c5c8b7f0d52cd1022e565c71 *help/AnIndex
ebf5711600418cce7c2a9833d8f3e2f5 *help/GenomicAlignments.rdb
e5300b82ae758bfecf64c4e6c307f974 *help/GenomicAlignments.rdx
a9fcc20a94227f9cc60a70691da77caa *help/aliases.rds
4286a76daddd38f55e70cef53e8c9938 *help/paths.rds
7392fde9819cda3af2cd5d622a1d37a5 *html/00Index.html
81b976d9e200a912b084988363777f46 *html/GAlignmentPairs-class.html
b1456d499b93cb4a28f1eaa95887347f *html/GAlignments-class.html
73ed4296765f4f1e81e1c0ddaf17046e *html/GAlignmentsList-class.html
613fb3a3cec4228dcdad4a5bde4ba912 *html/GappedReads-class.html
767cebbead07014629b75d901bdd3592 *html/OverlapEncodings-class.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
7555ef6ceddca83f8408e56f507f38d1 *html/cigar-utils.html
7bfd1cfb175168ba97f3979e5689742e *html/coordinate-mapping-methods.html
3cd2de4554bcd4ba76d033f7526a2f4a *html/coverage-methods.html
87eb0d870a79aff3e43ecf5abe1da9f4 *html/encodeOverlaps-methods.html
715c5f1ba0a45200fbe45164310a9753 *html/findCompatibleOverlaps-methods.html
ecf90a406b7446c45109d7ecf1c05b52 *html/findMateAlignment.html
d676dab3cc3976cd89b768f9ed2c54a4 *html/findOverlaps-methods.html
36e15cb15de317061b711177095be29a *html/findSpliceOverlaps-methods.html
5ff0e7e802b817ed33993a85ed69cc1e *html/intra-range-methods.html
272eccb4ab34a01fa03e3e7c6be5ad5f *html/junctions-methods.html
2de3fb24eb153a8e1fb9fcfc2fa66db2 *html/pileLettersAt.html
ecc56ff07f154c63a919f5f2ee3fe346 *html/readGAlignments.html
1a172027e8d7632eeeb666b2da286972 *html/sequenceLayer.html
4dd54a5d9963a5a57a8858462ea438a5 *html/setops-methods.html
5b9e4642081af8249db8a38cc020e374 *html/stackStringsFromGAlignments.html
0aff3032384b5d7e15e30a354812cf6b *html/summarizeOverlaps-methods.html
b6c847071c5d4d705c562a3a96046d1a *libs/i386/GenomicAlignments.dll
60e861123595d8bc5025308aa13fe4ef *libs/x64/GenomicAlignments.dll
22193c72fc07c32f876acee489f2ce96 *unitTests/test_GAlignments-class.R
b02dc164314a2514a39276e822352122 *unitTests/test_GAlignmentsList-class.R
8ebc949e316f84ed21c18fdf971de87f *unitTests/test_cigar-utils.R
1eec99e806cfe128483fd803bcfdd43f *unitTests/test_coordinate-mapping-methods.R
229bfd98328fafca3f1ad0a5e5e1d307 *unitTests/test_findSpliceOverlaps-methods.R
03c20128d1742334efd9c564122e1e4b *unitTests/test_intra-range-methods.R
a369c93b31e2e090aba36dcab66fa759 *unitTests/test_readGAlignmentPairs.R
d6c4737a308c9831ecaff1d0bbd842d5 *unitTests/test_readGAlignments.R
8e3c3cb75da36b4ab3daa58c6b46bef7 *unitTests/test_readGAlignmentsList.R
3ee2246e46dee0999386dd9538c4a5cc *unitTests/test_summarizeOverlaps-methods.R
