bcb46671f9de67f4c98c54cd2fb7b0a6 *CITATION
b13ef9b7c4e74ed5fd25a864ed8945e9 *DESCRIPTION
e45bb29cb7cd6e3284a87186a44f2ea7 *INDEX
6b0efb89f9f8c9e72aaf7b7cf18f7f25 *Meta/Rd.rds
67d0d5964f3a04d88f780b55cff145de *Meta/features.rds
33f0e6208f11ecb4298e1f713617606f *Meta/hsearch.rds
071ac55620bbce2493d0615aefcd90e0 *Meta/links.rds
018dd62d2663883ea4f23bb54176ec13 *Meta/nsInfo.rds
90641c1117059db0a394021912d0388d *Meta/package.rds
722ae84aa9d3933564b3a07a0df13be9 *Meta/vignette.rds
594c58e459cb1b832bf3859a9672d1ee *NAMESPACE
a107d0e9b9b71b7a7ad3bbfbe49f63c2 *NEWS
ebf0fc819595d631b8bf280c4b049940 *R/GenomicAlignments
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356bece8e092adaa9778cdc9b4251cae *R/GenomicAlignments.rdx
6b26faf2624597ddd375a4cac1f8cefd *doc/GenomicAlignmentsIntroduction.R
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664c56fa28e8e5bf70511a6e7ec51484 *doc/GenomicAlignmentsIntroduction.pdf
bf148e8f69e99022caa2dda05d7d0f17 *doc/OverlapEncodings.R
68888481e2bba183e3408e111907d416 *doc/OverlapEncodings.Rnw
dfd1d63912034be9cdbc115a6424c2b2 *doc/OverlapEncodings.pdf
25583b459e881b3bf7d0ca86e7d9c180 *doc/WorkingWithAlignedNucleotides.R
7ffa5eec2eb7b955ca22579bb869bff8 *doc/WorkingWithAlignedNucleotides.Rnw
0eebaa4fccdd33478c9982841164398c *doc/WorkingWithAlignedNucleotides.pdf
f3fa15b65377aac5ee9c663f6bd9e203 *doc/index.html
b2fd7039ad1baf6bf1633354bd8fa48a *doc/summarizeOverlaps.R
5398e425480c1f764c0dce679bd32525 *doc/summarizeOverlaps.Rnw
a8e38935efd24808a1592057ad437868 *doc/summarizeOverlaps.pdf
1c380f8159fda8fad5d0d4902ae9ea23 *extdata/sm_treated1.bam
af83f784077fcced98e3603bb7ad7a4e *extdata/sm_untreated1.bam
a260999f05827d73f7f58d823b12e469 *help/AnIndex
0f70511f3b1776581c7bdc78cd58101c *help/GenomicAlignments.rdb
712c72c130d02bcaf1f4c862a08e441f *help/GenomicAlignments.rdx
fe8a5dc6c8d9ac268421452969658848 *help/aliases.rds
3e503609f9e08611a8b190c9b0a63cf2 *help/paths.rds
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25ae80f2f9929708cfe32a4302d4569a *html/GAlignmentPairs-class.html
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5f61a2d0cffe4208ef2cc62770caf78d *html/GAlignmentsList-class.html
a96e260504feaaafd396259965b4afcc *html/GappedReads-class.html
4c198336a391ed67a01f53d73ec196a4 *html/OverlapEncodings-class.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
d67b1d1c50db8f6a80343abe1e9c01ee *html/cigar-utils.html
c8e564b772381c3ce0de499c8ffb2113 *html/coordinate-mapping-methods.html
ac6c28a676964506baf7dd4baf2550e0 *html/coverage-methods.html
d63cc69479a7baa63f18ed258912e454 *html/encodeOverlaps-methods.html
cbba2ced3fbbcb3a663731a19e6f1798 *html/findCompatibleOverlaps-methods.html
002115b9d38b8c05f6600ca9eb40c749 *html/findMateAlignment.html
85f7c7c46e7d89fe93c7dc6cf1677bf2 *html/findOverlaps-methods.html
569a76d931af3c9bd4f63e4e33ecc036 *html/findSpliceOverlaps-methods.html
9d644d3efd2d6a98b43f9299129834be *html/intra-range-methods.html
2f7b975e3e62f445b30533d3ef5a8283 *html/junctions-methods.html
3cef834cb92018eefd0fe71be72532fe *html/pileLettersAt.html
1955f06e926c73cda2f73f60ed79e4a5 *html/readGAlignments.html
a8843944cf6aabc43c6271965bc34fa9 *html/sequenceLayer.html
7c5c11650ee53c018f7d25311a2ece7e *html/setops-methods.html
d8d21ff1bb953458d846047465e5bc64 *html/stackStringsFromBam.html
df0d54444af26243d2bd3dd9852e4a12 *html/summarizeOverlaps-methods.html
3bd512905c1754a695bafe45b9aef562 *libs/i386/GenomicAlignments.dll
ccb9472500579a4f017500fb2738be62 *libs/x64/GenomicAlignments.dll
22193c72fc07c32f876acee489f2ce96 *unitTests/test_GAlignments-class.R
b02dc164314a2514a39276e822352122 *unitTests/test_GAlignmentsList-class.R
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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
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8e3c3cb75da36b4ab3daa58c6b46bef7 *unitTests/test_readGAlignmentsList.R
3ee2246e46dee0999386dd9538c4a5cc *unitTests/test_summarizeOverlaps-methods.R
