bcb46671f9de67f4c98c54cd2fb7b0a6 *CITATION
b65c4542dc808d9666ee7fd339133e2a *DESCRIPTION
e45bb29cb7cd6e3284a87186a44f2ea7 *INDEX
e35d3925982d7bb1a76783cc33bc11ec *Meta/Rd.rds
77a30dbd9a48297ae6e6ef2194a95267 *Meta/features.rds
0272536deeaffbe2a815af7d30c9bc84 *Meta/hsearch.rds
6cc25ca6c470d42ab82bf65ef413d419 *Meta/links.rds
69bf0cb8eac52dfe789ee6630bc87cf1 *Meta/nsInfo.rds
c9d71b90ecc6b76d9d07ffb8861acd21 *Meta/package.rds
683bdd8b71bdeb4b449a4807d79f8e02 *Meta/vignette.rds
7bb7e18239270f4823d72c1c0027d7d9 *NAMESPACE
81abf6695071798d8efe4ad444ba2495 *NEWS
ebf0fc819595d631b8bf280c4b049940 *R/GenomicAlignments
3e59030cfa03b5f313ad80f06be0c99d *R/GenomicAlignments.rdb
a014131b0e317a58333bb811558dda70 *R/GenomicAlignments.rdx
e477de63692e89f381228631df9e5526 *doc/GenomicAlignmentsIntroduction.R
6e39e7a38e67414501fb32634a4052aa *doc/GenomicAlignmentsIntroduction.Rnw
2b0b04eeb857544e17d209a793ac254a *doc/GenomicAlignmentsIntroduction.pdf
bf148e8f69e99022caa2dda05d7d0f17 *doc/OverlapEncodings.R
68888481e2bba183e3408e111907d416 *doc/OverlapEncodings.Rnw
b4a8d58f157a44e94e5bd2f0264f5fd3 *doc/OverlapEncodings.pdf
25583b459e881b3bf7d0ca86e7d9c180 *doc/WorkingWithAlignedNucleotides.R
7ffa5eec2eb7b955ca22579bb869bff8 *doc/WorkingWithAlignedNucleotides.Rnw
5efcb8ae0c6e2716c647cccae8db2d13 *doc/WorkingWithAlignedNucleotides.pdf
f3fa15b65377aac5ee9c663f6bd9e203 *doc/index.html
b2fd7039ad1baf6bf1633354bd8fa48a *doc/summarizeOverlaps.R
5398e425480c1f764c0dce679bd32525 *doc/summarizeOverlaps.Rnw
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1c380f8159fda8fad5d0d4902ae9ea23 *extdata/sm_treated1.bam
af83f784077fcced98e3603bb7ad7a4e *extdata/sm_untreated1.bam
8917983ae0492965dbe476232aa6d52d *help/AnIndex
c79b02143264ef98572dac72b9cb5ea8 *help/GenomicAlignments.rdb
38ebaa0349f0e18878b6f3a7f1027e0e *help/GenomicAlignments.rdx
61f4ddf162e217b5aaa47bc9c08f194c *help/aliases.rds
46b5fa1f51a5239d4f3e0a0b94bb9e94 *help/paths.rds
0764c622da1a851e360f2e9b8f1c0d3f *html/00Index.html
b874ae865282a2f280eb101ca9cc2156 *html/GAlignmentPairs-class.html
2d803dcf2025ff88dc38cec344137849 *html/GAlignments-class.html
462ebf4e1824c42f580b21f81605a4b2 *html/GAlignmentsList-class.html
ce2df9dc45dcc9ac44341a5a80ec3faf *html/GappedReads-class.html
5634168e8b15c7c0114cd6a68ada43f8 *html/OverlapEncodings-class.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
83ac997da06e1bd2fdd59dfa32e21aa8 *html/cigar-utils.html
7d34aae7d09189b077805c724918530c *html/coordinate-mapping-methods.html
5cb012e34450cd41755614993725154a *html/coverage-methods.html
64a531ca72207bb3a59bcc83758fd0fe *html/encodeOverlaps-methods.html
eab6c2b676e8e09afc1e8cc1646dd8b8 *html/findCompatibleOverlaps-methods.html
9098e8b11f1e81033e095cfc61439226 *html/findMateAlignment.html
a006a48448adb79d4b0a828639888a03 *html/findOverlaps-methods.html
7800d27b132fc1c06472d81f0b34b642 *html/findSpliceOverlaps-methods.html
d7a64233dfa9246bc1f391826d8e99ad *html/intra-range-methods.html
07097b83d6e0881a49284683f15c19ec *html/junctions-methods.html
2b299729de6ab6c9e377622a980cb250 *html/pileLettersAt.html
de6e1cc97cbfcc33e37644a2b69ec54d *html/readGAlignments.html
108be8a870ef6601d50e05fb7ecac651 *html/sequenceLayer.html
91e8e2b79484bf1ea7e1925a90605a6c *html/setops-methods.html
b3a6822c55cd58690f578e160f0787af *html/stackStringsFromBam.html
3690109ba098ee6ab02c0902bca617b0 *html/summarizeOverlaps-methods.html
e4a4b1a6c7c31c0d08590062f047b0c1 *libs/i386/GenomicAlignments.dll
f6537ab1a2459c1b09bc42686db34200 *libs/x64/GenomicAlignments.dll
22193c72fc07c32f876acee489f2ce96 *unitTests/test_GAlignments-class.R
b02dc164314a2514a39276e822352122 *unitTests/test_GAlignmentsList-class.R
8ebc949e316f84ed21c18fdf971de87f *unitTests/test_cigar-utils.R
c494127673b074fbd5bbecb4b5fe80f3 *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
