bdbcfab0af9efbb4ad56bff5b17dabcb *DESCRIPTION
e1736ab0ba84a1d7fff71c14fd699da0 *INSTALL
8adf14a998733081b8a038a0de48899c *LICENSE
8c0cd4c99b73471906c702e17ea2e729 *NAMESPACE
14b7838922ae4c06d3da4777995c530e *NEWS
53f4713655c2ae3d6d9f1ac2c3909574 *R/bam.R
607dee9a05706e15d235fc046af8c4c2 *R/bed.R
e19f309615a75141f8ae55d764ae3b3f *R/bigBed.R
998266c9153b1d3a71fb0899bf31eaa8 *R/bigWig.R
46fc727ec5ab7d5da34ae0fe056e912b *R/browser.R
5db88800ecc8977b4abea75fbc134b55 *R/chain.R
14c05d4aade1768a2b80124fb3de05ac *R/fasta.R
210e2f319fba6d55faecbb1333edb7a7 *R/gff.R
8fb03665aa351efa1d61092cd9c13e9b *R/igv.R
a7ef1fed3313ff15850b37f36cd4af9c *R/index.R
c5d867959ba72bdb5fe8bcfb8c772933 *R/io.R
8132aa8d42e94b5d5737b4b8cfabe900 *R/ncbi.R
f9d59c90d99684deced6ad7c2a4614aa *R/quickload.R
8c64fd1ddb26a16e6966087cb87ada06 *R/ranges.R
2183cd81b2e905d4c3bdbb1764642285 *R/readGFF.R
5d7855935f0824b2924435ec5ae3c99f *R/tabix.R
ead92bf0177f6085a5fa0611cef09755 *R/test_rtracklayer_package.R
e9f89d88f066437ea580fad49af49a45 *R/trackDb.R
a19878a8c574d5a7a4aeb0a040d5209c *R/trackTable.R
cfa9c993f84421b5a4eee39ae0f72568 *R/trackhub.R
364e671c4bd78cc32c1ca4bcdd42a196 *R/twobit.R
fb3c09097b825dab4ea0f87e42f8f040 *R/ucsc.R
30f9b21a18d4b6cfcf9d4e0d4dc9e78a *R/utils.R
a63ec50a72b655531bc666cc4d0d4606 *R/web.R
b8f60df639b4e616ad9d72f4f2aa3293 *R/wig.R
06b6babd88c05365704ea6abe5c6934c *R/zzz.R
492aeccc850f5ea08db1b96ab7988b7c *TODO
11e042278fe2d853e46ea1c3a4897f86 *build/vignette.rds
f1c6559b35fff813365d80f250b8fee5 *configure
8ff5e2bccac0835b96272cda647f5396 *configure.ac
40b2812d6b3ed936d3f45c13d99d73b6 *data/cpneTrack.rda
97c8cf543f7363ac5813ecbeb641a759 *data/targets.rda
62a457ade06a9b2377d2908711654ff4 *demo/00Index
fd76458bb1995a0761de52efd2d38c48 *demo/targets.R
ba50970d99ec3f5f8a3b7970a2e52b21 *inst/CITATION
20208a37f0faf278be721842a65ce541 *inst/doc/rtracklayer.R
1334f525ef4e10e8e54cd739fb52c4a3 *inst/doc/rtracklayer.Rnw
7fdcdb1025f8c997369debee792b2028 *inst/doc/rtracklayer.pdf
627f7757022fcc8ef63a494fdb92e78b *inst/extdata/demo.narrowPeak.gz
45a3511bd993b3b72fc33209ac5b8b75 *inst/notes/design.org
a1dceea3fa363d468c17d90e4b52bc4a *inst/notes/requirements.tex
1ed04c41046c9bc79f80bd65e9d8e6f1 *inst/notes/use-cases.tex
8fdc046b8313f9af91dbdc21d02f4a23 *inst/scripts/cpneTrack.R
5d600a101c281bf037769c8cb082ae03 *inst/scripts/twobit.R
1ecc1e6e021094cb5f94b4bc8745bc93 *inst/tests/bed.bw
8ad4283420c99289c21f4ce5440c226f *inst/tests/bed.wig
1e1f741e29717865afd71d9528c041b5 *inst/tests/genes.gff3
7b877a421abbc8c96a46c13cf8a0b011 *inst/tests/gtf.gff
51ae60628faadce25d5f17b328f96e92 *inst/tests/multi.wig
b8ddf817a4a4978ece1e22596f91a7cc *inst/tests/quickload/T_species_Oct_2011/T_species_Oct_2011.2bit
79ebfcd92aade3af546fa01048090fd0 *inst/tests/quickload/T_species_Oct_2011/annots.xml
f4fa4faa479b4ac5c907c1fff6ef5f56 *inst/tests/quickload/T_species_Oct_2011/bedData.bed.gz
5b0ad4880e8f7187338f5958c78c803c *inst/tests/quickload/T_species_Oct_2011/bedData.bed.gz.tbi
d41d8cd98f00b204e9800998ecf8427e *inst/tests/quickload/T_species_Oct_2011/bedGraphData.bw
7f656d0b19bdb05090e9c7f25f76636c *inst/tests/quickload/T_species_Oct_2011/mod_chromInfo.txt
f565227b82d1e2cc765c51dab2e85cc5 *inst/tests/quickload/contents.txt
a77aae8c92190371f0268bdd78b3fba3 *inst/tests/step.wig
da3448dc4bbd468e18bca8196d922835 *inst/tests/test.2bit
d7b044db64836c0e56b94c9a319ac95e *inst/tests/test.R
4dbda14562f0ed064f8f8ffb2ac8fb34 *inst/tests/test.bb
dacd53f71b88f4f15445474366745a7b *inst/tests/test.bed
69b3ec0ad8da42fc565da37f29c61866 *inst/tests/test.bed15
90367c22016c9fbe166bbc507b989f18 *inst/tests/test.bedGraph
303e7896894bdf47578fdcd15fecba02 *inst/tests/test.bedpe
e669ad7e1ee3266bcc418e059848a99b *inst/tests/test.bw
2133526a93413c6bbb02a5b7b7b1738a *inst/tests/test.gtf
b3d553636cb877aa650238028cc2bbc1 *inst/tests/test.xmfa
0e1a6f36d34f630340a0ef38889db0d1 *inst/tests/trackhub/genomes.txt
830c6ebe60aaef5346265a84e27fdb06 *inst/tests/trackhub/hg19/trackDb.txt
4dbda14562f0ed064f8f8ffb2ac8fb34 *inst/tests/trackhub/hg19/wgEncodeUWDukeDnaseGM12878.fdr01peaks.hg19.bb
4a9a04118d41220387ee5f1b4ded7af3 *inst/tests/trackhub/hub.txt
080abe08c56da02903b687b1c79c3395 *inst/tests/v1.gff
a81499cbeeebab1ef1979865a90f901b *inst/tests/v2.gff
c4b27d58615bef3a82d20e9ec62fe88f *inst/tests/v3.gff
4da2d3a1434b5e5e8120fd52b8c2a4b7 *inst/tests/variableStep.bw
932eab3fcb811671c46fcfff5a43da27 *inst/tests/variableStep.wig
1c612ce4b8fa4c7b512043c1c42d2b31 *inst/unitTests/test_bb.R
8802f6517f013b0f9f3c8a41a734f252 *inst/unitTests/test_bed.R
7d357013c5048c347602a5d551e0a0c9 *inst/unitTests/test_bedGraph.R
f5d26a8b18d3d26c895daf59ec08d29a *inst/unitTests/test_bw.R
b2fc5edbe183b293fb106c3f8a5ffea3 *inst/unitTests/test_gff.R
fc29c2108edddc1ce3119624fadc9b6a *inst/unitTests/test_trackhub.R
0be88fe9f5763004d32ff177fc1006f6 *inst/unitTests/test_twoBit.R
98fe39f904a944a520bbbc86fbb0a374 *inst/unitTests/test_ucsc.R
b35558b2d3c7d79a46d00730f4801d0f *inst/unitTests/test_wig.R
997e785c42e611813b88db37461b757e *man/BEDFile-class.Rd
622562050261166eb3808247fc21aa57 *man/BamFile-methods.Rd
669d24157acc75447b120aec1c70d51f *man/Bed15TrackLine-class.Rd
46b18478c026d7840b36da180154c53c *man/BigBedFile.Rd
2739abaa152793cb8ae342f73ec95b54 *man/BigBedSelection.rd
195eece53dcbe1cc31edc0d2dbffa3e8 *man/BigWigFile.Rd
7c59001ed0a1683e83afdd96f0169c4d *man/BigWigSelection-class.Rd
379f4717e90f778347698e66490ef808 *man/BrowserViewList-class.Rd
93d7db903adab4f067272f60be698390 *man/Chain-class.Rd
18ec16db271b30103678b98a52621510 *man/FastaFile-class.Rd
cccfa1daccad224ae7e003eefbefdb0b *man/GFFFile-class.Rd
3f52c4f66a8d47571bf3ab8194d4c60c *man/GRangesForUCSCGenome.Rd
e7748d620ec70bd4f672a301ed03e340 *man/GenomicData.Rd
599746bdb20710abd4c1fe2bfa074e00 *man/GenomicSelection.Rd
aedc1c4f51d02a1fe6679cdfcf6d3d69 *man/IntegerRangesList-methods.Rd
47d91e4c09c87c13c804aea38e544ab7 *man/Quickload-class.Rd
d8a6e892d3480c6352fe0dc89238b8d8 *man/QuickloadGenome-class.Rd
00b14b0666ff9c935457237e9d565613 *man/TabixFile-methods.Rd
8732d7d580b9d31a3803236bf440d6d3 *man/TrackDb-class.Rd
28526ee8f747a9dbf307c6d884764dd2 *man/TrackHub-class.Rd
61d38511142bc274f0a14e54894d6f3d *man/TrackHubGenome-class.Rd
35091885fda2b80721a24642f6e04991 *man/TwoBitFile-class.Rd
b4ca81b1e8eae245594accf76ea7e606 *man/UCSCData-class.Rd
87d12d1d9d68980bcb8dc3282eaaef68 *man/UCSCFile-class.Rd
0324854342f5877fb574d0901147c41c *man/UCSCSchema-class.Rd
c005e06e1679676d3783248601213826 *man/UCSCTableQuery-class.Rd
9890e319e82f51e1088e8456497341e8 *man/WIGFile-class.Rd
69f8d0d1d033c20d4398155314409667 *man/activeView-methods.Rd
3b747d8bb6625ba70fc0b5431e9ce01a *man/asBED.Rd
c1c3f0849bbc657bfdf61dd86dbe8ee5 *man/asGFF.Rd
6be6efd635e41fa1d814bcc01c0f387b *man/basicTrackLine-class.Rd
eac632a9f972a562c1164ce4d171eff6 *man/blocks-methods.Rd
66df0fd2bb07618c210cf6e7c5fe2479 *man/browseGenome.Rd
cb34683b3b8f06b10921d1f5c03a5b26 *man/browserSession-class.Rd
043e81566759aec120360fcb10ebf955 *man/browserSession-methods.Rd
558961315c84ec185c95e44d020fb298 *man/browserView-class.Rd
d7e0e22430de6914277f80f44732ab26 *man/browserView-methods.Rd
80f10b808515286ed2b76352c2b094a3 *man/browserViews-methods.Rd
7059cb687f0a5f5af474fadb917f9d8d *man/cpneTrack.Rd
b2e10bc58aa5c0c50b46091a3752704a *man/genomeBrowsers.Rd
bb648844f75e3f414940415f460d7dd9 *man/laySequence-methods.Rd
5bb15c9ae7acca8e1936e187c9c83195 *man/layTrack-methods.Rd
f92996ba58d6a6ee036dd5e02ff69bea *man/liftOver.Rd
386e2d751c516b0e58a25be41f891791 *man/readGFF.Rd
e38abad38a406bb471393f33e09aec57 *man/targets.Rd
4960ca21ccab9a4f1c2672427b270668 *man/tracks-methods.Rd
179a091668b32ef1f2f138d98f8f67e8 *man/ucscGenomes.Rd
26f752bd20ca01de3747828d70cb06ab *man/ucscSession-class.Rd
dfe5103bc5c9ae04eb89756b07f04e42 *man/ucscTrackLine-class.Rd
8f5479909ca725aa41d9825e81ba31b8 *man/ucscTrackModes-class.Rd
213910113b5923c3b95f0dfedfcb2d1d *man/ucscTrackModes-methods.Rd
e033d6b91caf7a0100aecb9684620e13 *man/ucscView-class.Rd
6e13955d5dd12f39d7b670d70e87a405 *man/wigToBigWig.Rd
4655df42567aedd1790eb1195acd4811 *man/wigTrackLine-class.Rd
89c64601544f50d62c58010dea7a4a5a *src/IRanges_stubs.c
6d5f53326fc11155433fe9314f690534 *src/Makevars
467a20f1f9d626f23b4f6e3317727d3c *src/Makevars.common
7bba46bfbf6a533e61272f25ec3bfb27 *src/Makevars.in
792098a8fa5090866786d4bb14f583b4 *src/Makevars.win
ee10dfe517dde4129fd9aecf5b12300a *src/R_init_rtracklayer.c
35b1cdedfa6e3e2842c15a35bd373ec6 *src/S4Vectors_stubs.c
a255527d3590da0bb08d05e05719c9ee *src/XVector_stubs.c
26362ccc7a18fbfd42c282930036f3fa *src/bbiHelper.c
37b9d190c7d17ff51b84494735fceb5a *src/bbiHelper.h
faaeaf7ea10ab45da259239a96a8761e *src/bigBed.c
6cc9776c90da9b9001458f953cd54482 *src/bigBed.h
f45f596d24b41940fa60b1288bab86fa *src/bigBedHelper.c
5a8c0642aa063b7731814ea63044c6ca *src/bigBedHelper.h
050b0f2caca65fd3a5d84dcf558a294c *src/bigWig.c
069dd41f912eecf37d79b30dd0fa52b3 *src/bigWig.h
f107495c3f90765203b4dc16b4369e81 *src/chain_io.c
028003240fc7cfd668f3036c3cdcfd70 *src/handlers.c
f376a1d2b084b6b9f46cf89db3f9ab66 *src/handlers.h
9649caba8a33ac2007c72c2d313bf9ef *src/readGFF.c
18ffb80657705842bd76b3f75c26c348 *src/readGFF.h
a761005e92e7b6a3ffa62c34ab6742e8 *src/rtracklayer.h
c61a601a2ecd1b82c071e91467e37f3c *src/twoBit.c
c4b666996d2cb407d432563cab10ada7 *src/twoBit.h
5add4b8b5c4c15ca321f4fa56e0cae0f *src/ucsc/_cheapcgi.c
b77d59a91a877b9cec4985f0a8ee1f46 *src/ucsc/_portimpl.c
d2ea68af9e4d321b1e7b3a17fd839448 *src/ucsc/_portimpl.h
81582040b2ea255b234021103d34aa3a *src/ucsc/asParse.c
4c9d6abc3a5b1f6b8aa7297a8010af6e *src/ucsc/asParse.h
e091c0bfdcf9e482b1f56de01d7ce411 *src/ucsc/bPlusTree.c
045a2e41468674a2bc3b404a1826e62f *src/ucsc/bPlusTree.h
6ab3dae32e18e17e142a40f5f81d8f60 *src/ucsc/base64.c
097addf4aefef1baf4f3aa12b97bb683 *src/ucsc/base64.h
576638d55843eeb6997ac7673a722b0f *src/ucsc/basicBed.c
3239b4ee6d023eb35405e1289245f1ce *src/ucsc/basicBed.h
cddce6ac0b7646c630422afcc9c36a92 *src/ucsc/bbiFile.h
27b1cb9989ba0df4f78aaa2ef0dae422 *src/ucsc/bbiRead.c
5dbb7361c6dc834c662013d77542b031 *src/ucsc/bbiWrite.c
6b801c36369334ad3801393249b5f414 *src/ucsc/bigBed.c
9611aa8429198180e8dd42f0584748df *src/ucsc/bigBed.h
fbcb033500d3e87f1da0078f67f9c0c9 *src/ucsc/bigWig.h
019ef408378fd7b3f2f8b8be780ec946 *src/ucsc/binRange.c
81fa658c87f25a69894a0a8ea3efaa84 *src/ucsc/binRange.h
dd3c5977e23fb3818f8293aee847db5d *src/ucsc/bits.c
5f565890c5b739f74c7f418fd804cb3d *src/ucsc/bits.h
235635017c580dd191f5b1958cf019cd *src/ucsc/bwgCreate.c
8a7066f5351e59ac1cd1da5ccf454e4b *src/ucsc/bwgInternal.h
77f72609688c19155f10431123bfa4b5 *src/ucsc/bwgQuery.c
0cdc037f8e3a9b69a9b019840e500655 *src/ucsc/cheapcgi.h
21399a6452aa239589ceedf80342d75f *src/ucsc/cirTree.c
1683454212bbaa977045574e139c3ea3 *src/ucsc/cirTree.h
4ee178d840e6e82e7ce10c414471323f *src/ucsc/common.c
f9567c94e959fc4f52f12ce22c00e220 *src/ucsc/common.h
c9417d73f64dcd5526067e08c0db82be *src/ucsc/dlist.c
f2f79f1784ce9d1f99f0d3617c6c1930 *src/ucsc/dlist.h
a418978491dff0e20f770733cad89121 *src/ucsc/dnaseq.c
a3322eed24caef6e5fba60e854c34958 *src/ucsc/dnaseq.h
d800a8167eb7076b6eb7966e4617dad3 *src/ucsc/dnautil.c
33965260d6de1c6e0fd381d21909076c *src/ucsc/dnautil.h
c04907f5e343b652f7ff26a233508b4f *src/ucsc/dystring.c
5598665c018b00c16522bc681ecca2a8 *src/ucsc/dystring.h
01a781fa71ae5792d329b7dcc19844cc *src/ucsc/errAbort.c
07caad4b96232b761b3f1015bfa0ec3c *src/ucsc/errAbort.h
2adca7a26d559f0214f28ba7db8be50b *src/ucsc/errCatch.h
588cf0cb122c5a8d238fa56336aabf0a *src/ucsc/filePath.c
71f2338ef6240404a89beed7d9f51a72 *src/ucsc/filePath.h
597cfea6cf2cfa9d3ae56e9f3b0622d5 *src/ucsc/hash.c
3dac7e987e9041d767a23541d62d0b7b *src/ucsc/hash.h
9903442dbe96665221554db3fe96f9ff *src/ucsc/hmmstats.c
80450feb27177c5cbb57ea25f740917c *src/ucsc/hmmstats.h
da7cfbac55c93e1dc54671bf442db7b9 *src/ucsc/htmlColor.c
8b86cc5942eb4399161236bb0eb1da46 *src/ucsc/htmlColor.h
bde00e96163d75617001535e8026e617 *src/ucsc/htmlPage.c
bdac756f901898f4ad95beeb348e9fb4 *src/ucsc/htmlPage.h
3f5a85ab642c14b6fa4949a1f9de24e6 *src/ucsc/https.c
ee3eb5817cf42cf92774df42daed1f6c *src/ucsc/https.h
ff9cc3c51012d98da33e9b4fb5a78e2b *src/ucsc/internet.c
bb04c17bbb06274b1037f40f67caa9b6 *src/ucsc/internet.h
57141dc4e7a085a287c5e81bb5a3c43e *src/ucsc/linefile.c
829ae45ff665993e1531ad046305440c *src/ucsc/linefile.h
6abd18b5ba3cfc5344eea648f588229c *src/ucsc/localmem.c
7c96d1430c3d83283ff88c0b0bca0f42 *src/ucsc/localmem.h
198cdc794d5054a3da5cb79058dcb260 *src/ucsc/memalloc.c
f24cdb22ad283310d99bc328ac6414de *src/ucsc/memalloc.h
def37ab8e8cf8f730cc125f23e827250 *src/ucsc/memgfx.c
9626a7ca53b8d41ca3902418f16f96a6 *src/ucsc/memgfx.h
de0a9c21a7cb92eeeeb485d3af18b31a *src/ucsc/net.c
85ada9ea0d54cd2d7d8f57240d822afb *src/ucsc/net.h
255897a171de64ba468e5717e0828173 *src/ucsc/obscure.c
00a07b32a54fcfb7d996b60815266010 *src/ucsc/obscure.h
7e0cf9aa2149aaaa28ccafc59649f96d *src/ucsc/os.c
9d0b4d0c07f59ebb73e4d0b3d1d6bcb0 *src/ucsc/osunix.c
2e369fcbf477f850127a7c8afbe5c8ed *src/ucsc/oswin9x.c
220186cc34fa410cbafd1731f39f2511 *src/ucsc/pipeline.c
b29c2724f5d22ca9b1c6938662b1a63f *src/ucsc/pipeline.h
e2b651528ddd9ea9076bdb8a98312f5c *src/ucsc/portable.h
6c90cbb177f198829e58af436865d04a *src/ucsc/portimpl.h
d613fe56d49783bedff47927bd760bbd *src/ucsc/rangeTree.c
6e5493dad2f7a254de9591ffbf721a35 *src/ucsc/rangeTree.h
2cdbcc5bae01f3da9b0de9942954c735 *src/ucsc/rbTree.c
a3002ca77338114b35ca009fc26301d7 *src/ucsc/rbTree.h
f7f58d66cced835f83c3bb0bd60c3022 *src/ucsc/sig.h
1dc28df4482ad35248e4d073f1d60ec8 *src/ucsc/sqlList.c
b23989b172126c0c682a4d20e922a73b *src/ucsc/sqlList.h
8f1161b1841fe82958990c086266e00e *src/ucsc/sqlNum.c
35b90fabc6a18e68f634e9f0ecab6518 *src/ucsc/sqlNum.h
cc7471e009b3c0d74c07a50d483b4653 *src/ucsc/tokenizer.c
210b3477d067a2d84125b42c5b80f75a *src/ucsc/tokenizer.h
f60cd2d2a7a51c9846b43925a436af9b *src/ucsc/twoBit.c
6928145a109cc0fdaea43a0fff28b0a5 *src/ucsc/twoBit.h
9be14f40494b1e82669b8718f2b5b518 *src/ucsc/udc.c
1f57eb0a3fc8e3d669fc01727df83485 *src/ucsc/udc.h
27ad0241f884e29a5876ea7b0f1ed20b *src/ucsc/verbose.c
895f97eb781515b2be6069d7ccbda824 *src/ucsc/verbose.h
675a2b8d768ff1bcb4db6b81a4ff5063 *src/ucsc/wildcmp.c
379be1564efb3b7921807447bc7d9a50 *src/ucsc/zlibFace.c
0fe854153c488b613b01e1beee86f6bf *src/ucsc/zlibFace.h
52f50f63522fd0307ea6a4508de63e07 *src/utils.c
62f756e32df854864af927be8d2441ce *src/utils.h
a6e1734883d13f7d25205e5f5c20991e *tests/rtracklayer_unit_tests.R
fa36193f9c797a171b90754f3ab47070 *vignettes/example.bed
1334f525ef4e10e8e54cd739fb52c4a3 *vignettes/rtracklayer.Rnw
