de06829f7da0d610609e090fc18bef1b *DESCRIPTION
5a4664d7184b1283344aa1eb2213a5e7 *INDEX
36ee8e1e1f15141915b41f1ac57ce756 *LICENSE
f0fbbd7a20356085e6f92e31ef2a5c4b *Meta/Rd.rds
c5c41d6737d34f3f5cab99d52d8ae74d *Meta/hsearch.rds
4865dc619bb5c088b38e0422c412f186 *Meta/links.rds
02d381ddb2ea87ddfa51b0f53e7da7ea *Meta/nsInfo.rds
29b51a2ffe59eb111c11fedac5b4b7b2 *Meta/package.rds
7cde813ad6e7d118f76e7951d0f4de4d *Meta/vignette.rds
6b32eb56c08bc8d62a4e3938fb7d821c *NAMESPACE
f6256d26d9c585ea7b87f6a8dbbd165a *NEWS
ebf0fc819595d631b8bf280c4b049940 *R/Rsamtools
fec81205ac155d5bc203bcc139a4f03c *R/Rsamtools.rdb
4fa64178460cf2b6b569d6ddaae7df7e *R/Rsamtools.rdx
82e4044f9827182e5b490f2de05199a1 *doc/Rsamtools-Overview.R
f9f824699708b55d54d3a403fe72ed74 *doc/Rsamtools-Overview.Rnw
1b079295eea1fd4b936511d5e7ad1457 *doc/Rsamtools-Overview.pdf
b47e5d1780052a9d452fe7f686764b54 *doc/Rsamtools-UsingCLibraries.R
d92d976543d468cd0005bcfe09e63078 *doc/Rsamtools-UsingCLibraries.Rnw
61f604d125f092a792407e3f051f8f1d *doc/Rsamtools-UsingCLibraries.pdf
7008470e2c6fc6a24a265c5c275814cf *doc/index.html
e1170ae664ec5753f7df38f821fa9e83 *extdata/CaffeineTxdb.sqlite
22323232ba2f824ac8db07672145f03d *extdata/ce2dict1.fa
25a019557bb5685d766ed61dc4603a74 *extdata/ce2dict1.fa.fai
7df758adaaf5b6d487ac22e4dba6c31e *extdata/ex1.bam
f3fa4087d439dad4d404b34dad491747 *extdata/ex1.bam.bai
be9391b9eb67b71c52b8b62aa8729b8e *extdata/ex1.bcf
db1d9a70089ed6a746574898cfbc450a *extdata/ex1.bcf.bci
96db184679450f1ff65e95a5a6712d27 *extdata/ex1.sam
f9a7ff6f4b559b5d332e19a30c3f86b0 *extdata/example.gtf.gz
5d8c67b81c8cc21846c6afae879ca705 *extdata/example.gtf.gz.tbi
2cdd30b45e14a23cd4f5878abb56ddbd *extdata/example_from_SAM_Spec.bam
91255e6f73b6464064b1eca892e48209 *extdata/example_from_SAM_Spec.bam.bai
bdb9b860e63313055d89149365ade485 *extdata/example_from_SAM_Spec.sam
1da9e8b047ed977ccb5de772b2462696 *extdata/olaps.Rda
715c47c0662b143147324b27bb854dc9 *extdata/pileup.txt
46d5ed9ac766376dee08e14d107dabfd *extdata/samtools-github.txt
23294b7cc9de134693fe56665ad54ca9 *extdata/slxMaq09_urls.txt
ce71aff63ec52a72d26cadef6341e0ac *extdata/tophat/README
a3aac6bef3effd53505adb9b2e013d6a *extdata/tophat/accepted_hits.sam
27b6e5502996fbf2dbbc069ee9bf84f7 *extdata/tophat/coverage.wig
4ece538c2a4c0dc91de5e9967b97fd8a *extdata/tophat/junctions.bed
1cf6d1223342c4a95e04bcb0550c96a5 *help/AnIndex
6b19df01bce32de2bd6ffab9663a1c8a *help/Rsamtools.rdb
4add981857d64975e977cc9fb29986fe *help/Rsamtools.rdx
44fbcc0672ef69682acd0be5b236b31c *help/aliases.rds
d4f7d70e0b00094c92e6d3a47d60d6f6 *help/paths.rds
7792e6e5008bd0d9afa8a0a889c9fc2a *html/00Index.html
444535b9cb76ddff1bab1e1865a3fb14 *html/R.css
88a014074e42c5b77b199a511d0804e5 *include/samtools/bam.h
aba13a3883d7d117af33a6d8fe8c1ed1 *include/samtools/bam_endian.h
c6e46d67a15d6af176d1ac7be180abb5 *include/samtools/bcftools/bcf.h
9b250355a7de8ba49adb8a3a2db23770 *include/samtools/bcftools/prob1.h
abd042e94b527d534410175167a07e4a *include/samtools/bgzf.h
060c5e036ec8bd44ec5e25549a1e160f *include/samtools/faidx.h
4c3a3f5ca4f46048f1349aa507e3da81 *include/samtools/kaln.h
827428496eca8cc4aa8edd431e884f29 *include/samtools/khash.h
7f06ee2579c03c3316e7c75145d8ed5b *include/samtools/knetfile.h
93e492050e605b4b77ee0d0971baf634 *include/samtools/kprobaln.h
89e7b91e8dd04627d7ed7833322e8ce9 *include/samtools/kseq.h
e70ba0de37708a1104fa25404d01319c *include/samtools/ksort.h
e6fa98213a711d4a816a9c35a0a90bdb *include/samtools/kstring.h
afd2968a10cbf237b0dc3ce0e39a0e7c *include/samtools/razf.h
3e155e8b01994c3c81f139dfa711bc03 *include/samtools/sam.h
b06fd42b19dce6166bbd14057b263a9d *include/samtools/sam_header.h
abd042e94b527d534410175167a07e4a *include/tabix/bgzf.h
7f06ee2579c03c3316e7c75145d8ed5b *include/tabix/knetfile.h
e6fa98213a711d4a816a9c35a0a90bdb *include/tabix/kstring.h
9ea09d7361b319cb5e4ca2d752a70e9d *include/tabix/tabix.h
8c798bb2af50eea4390e889033e7ef93 *libs/i386/Rsamtools.dll
b4774d649a119fd7fb14093cd1ade1fb *libs/x64/Rsamtools.dll
fdc9d5559f467332c048e1fc92933d0b *scripts/BamViews-1000g.R
7c89145d838d01d56ea7f705a5517a7a *scripts/features.R
df9218441b902d069f5c06d99d742fb6 *scripts/readAligned_prototype.R
76f503c5cf3165c198c9b71a2a0260f9 *scripts/remote_test.R
0bf0afc1ae9722c9554c6f6dbd8999f7 *scripts/update-samtools.sh
7b8ce960ff8555ae68a9c51007e1542c *unitTests/cases/ex1.sam.gz
7df758adaaf5b6d487ac22e4dba6c31e *unitTests/cases/ex1_noindex.bam
6a5958f08f38d0ec9edaa102fdef65d3 *unitTests/cases/ex1_shuf1000.bam
7c1ac84cf8c553c0503ac44ec535ef39 *unitTests/cases/ex1_shuf1000.bam.bai
0dd5eed996f57fa6cabc6e61912b7f6d *unitTests/cases/ex1_unsort.bam
d41d8cd98f00b204e9800998ecf8427e *unitTests/cases/ex1_zero_index.bam.bai
556492a4e08d4952bf5eef892330500d *unitTests/cases/no_SAMPLE_header.vcf
5d50f7033dd00604f269d9488907e9fa *unitTests/cases/no_header_line.vcf
ac02584ece063693f76c7de3a6c26ef3 *unitTests/cases/pileup-no-stars.txt
7f2ccec39e20c8cc23ce7514a454c803 *unitTests/cases/plp_refskip.bam
b276362cd73352494e2ea78cecef09ee *unitTests/cases/plp_refskip.bam.bai
ba3ac72b6b59b48ddd6c5dd2737e63bb *unitTests/test_BamFile.R
66ab8222cec7d67f2416c7b99894fcdf *unitTests/test_BamSampler.R
0efb683c519fc6b19e5d6efb475366ab *unitTests/test_BamViews.R
f7d1796e7693f6a3c0afc0123f97d366 *unitTests/test_BcfFile.R
caeb5ebe33e982d846a44941d221260b *unitTests/test_FaFile.R
97296303ac4871157d6e0a8ea3927efc *unitTests/test_TabixFile.R
813543d9ecb97b3006a882e2086e4481 *unitTests/test_applyPileups.R
b067c5910dc76c1402be5974076afd8d *unitTests/test_asBam.R
3205e5c5677c89cd936c87deec4a1ce4 *unitTests/test_bam.R
753f6f3e6c9fa75fc29994af87f56de1 *unitTests/test_bam_count.R
289a01b62bdccc1ffb49c73473e3f610 *unitTests/test_bam_header.R
d6e9f353872acfa3ef94cff16e8c8a00 *unitTests/test_compression.R
2f78373b731e6bd51809e1cb3eb594ef *unitTests/test_readAligned.R
493f12a62b8f50441f59e0e7a14a1dc2 *unitTests/test_readGAlignmentPairsFromBam.R
f90153cfec8a57ac27be10677172b8d6 *unitTests/test_readGAlignmentsFromBam.R
8a9641da0ccb2bf14c9520232a6ba794 *unitTests/test_readGAlignmentsListFromBam.R
26597ca7fdf80e4a07d99cfa78717939 *unitTests/test_readPileup.R
c845a4269940541c04f8349fbe23f92c *unitTests/test_scanBamFlag.R
e8ba000c556d2b8458957e61b57eb220 *unitTests/test_sortBam_test.R
3e29abf6628db879fb9b116bb85e9c62 *unitTests/test_utilities.R
417f9c6ecd11541771fea572000b6aa4 *usretc/i386/Rsamtools.mk
417f9c6ecd11541771fea572000b6aa4 *usretc/x64/Rsamtools.mk
94bb74686bee76e47abbfa5f1f473344 *usrlib/i386/libbam.a
91c6190d5eefe004eea2fef4caaa9f96 *usrlib/i386/libbcf.a
987ee8970067f5f41ee5dab8a39c13bc *usrlib/i386/libtabix.a
61263a2f9f0e0b26143333d1d4fa591e *usrlib/x64/libbam.a
f6d2cd25b2628c4469c13bb0950cd0f0 *usrlib/x64/libbcf.a
a050c62bdcbdc16eac3b5ea8f49d4dc5 *usrlib/x64/libtabix.a
