f049161e3269eefb400cf2a08fc618ec *DESCRIPTION
68bb9ab215ae4b272ec27b23211bae93 *INDEX
bb087882b665fe8e24160a58aedd00ce *LICENSE
b276a733cc974da03cf8b0ca97bdb0c3 *Meta/Rd.rds
4ca3d77aa8a5258ed09103674f9a1b0c *Meta/data.rds
67d0d5964f3a04d88f780b55cff145de *Meta/features.rds
aee766e6ee88b439a1c40a8c3617f784 *Meta/hsearch.rds
ad39cce764588137bd0e91da93e624f9 *Meta/links.rds
b694a4fc834487acb4256f0affbd55a8 *Meta/nsInfo.rds
7c155e2eb2f382ea323b2030044e2dad *Meta/package.rds
6d3e98b1196c19fdf70dc413bf2448ee *Meta/vignette.rds
529d6739f5d3e673afc9a295d7862ebe *NAMESPACE
ecb76a5811661ba7a362b145f02bf20b *NEWS
ebf0fc819595d631b8bf280c4b049940 *R/CNEr
551b72ca698bd987375d1f223504e86a *R/CNEr.rdb
bfc0450bfd7829f7111761f6f361adae *R/CNEr.rdx
a595fc03c3b3d57f048c4e21a18c7cd2 *data/CNEDanRer10Hg38.rda
85fca72fe185084dbb12393bbb56c94d *data/CNEHg38DanRer10.rda
d7aff5e8ce701e2ce81feb5ba8434b73 *data/axisTrack.rda
05e4a1691e623dbc5d5132c625c3e952 *data/cneFinalListDanRer10Hg38.rda
3e2c63d5839dce07a3f8a017924633e6 *data/cpgIslands.rda
f636989efeff6b5effb53b546919718f *data/grangesPairsForDotplot.rda
fb9424ea5abd0f82ef1105e8462b8a1a *data/refGenes.rda
9a69371c94a2e1b3c0314f8e3ceb6782 *doc/CNEr.R
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423f8c5e19fcd48be4f349734f249cde *doc/CNEr.html
0f399a35cf4d483a0f0841c83e4aaa2c *doc/PairwiseWholeGenomeAlignment.R
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7e87f8cbd93474b25eb658c7c0d06504 *doc/PairwiseWholeGenomeAlignment.html
5fe54fa153d8ed86ace9301a0b2b7d82 *doc/index.html
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144c4e621b5903d66fce90d40ff3452a *extdata/cne2wBf_cteIde1_danRer10_100_100
703b7fae3bd724a255a201e07f0f19ff *extdata/cne2wBf_cypCar1_danRer10_100_100
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32f9e6948d016e9935633c6f1c34ed43 *extdata/filter_regions.danRer10.bed
8f357f770b042ed678b4f2b38e687053 *extdata/filter_regions.hg38.bed
83a080592fbc9a9e1e3c8045874bc4b6 *extdata/hg38.danRer10.net.axt
109773cc892befc7f16e64051a2f3180 *extdata/rmsk.fa
ecfff71e276939f8799b675c0035c131 *help/AnIndex
aec4a7de1a18188aa0e15d64f94f178d *help/CNEr.rdb
b55c31916ac5b79d83822a671994a32e *help/CNEr.rdx
9d9ad820a918968316e5d7f84f854416 *help/aliases.rds
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77b26845f86499c77d2ed710abfdbdc7 *html/GRangePairs-class.html
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234f1461ce592888290b7c567ed5c741 *html/binner.html
fa8170d22794a2a1e87ecb8e01046ba0 *html/blatCNE.html
5a45722c3150e3d3d3579db849f60b4b *html/ceScan-methods.html
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2c2cac7c6e9adec383f4906149dd29a2 *html/chainNetSyntenic.html
914cf72be60176a901d34918dcc41101 *html/chainPreNet.html
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6cb3058f0c90e8cc2dec41d2086bdb2f *html/cneMerge.html
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5fe049258996a965300e279634e9fce1 *html/psubAxt.html
328bd8e97aea7a297a6652290d3b5ff9 *html/queryCNEData.html
d9d071f1aae236b9075c04daef48a0c1 *html/read.rmMask.GRanges.html
87061f62b7032a13c5e7fd8de8768981 *html/read.rmskFasta.html
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85d29d8faa710d8514acf6e91353b3d4 *html/readAxt.html
311d2c7107e7ba3843378ffbd14bafa9 *html/readBed.html
460b7aedc42a4acdefb0ac8667091729 *html/readCNERangesFromSQLite.html
d74bc2f5d7a4ca8a634ba0d75e3aa71f *html/reverseCigar.html
e2fe455a255ba0ceb32c740bb7f39182 *html/saveCNEToSQLite.html
442e20aad6ee794fdd7a81caecbab288 *html/scoringMatrix.html
f7ad5e284c0ca783468f0442e7d1f562 *html/subAxt-methods.html
8210e3343c7233a0b067cce8985c2ca1 *html/syntenicDotplot.html
904d4bd8e19b0a2cb7d6fbd63f0b3e5e *html/writeAxt.html
79feda0439e29a57b3c25a1ae0cd661e *libs/i386/CNEr.dll
ea9ba586b7fcf5073bdf4ca46c6055e1 *libs/x64/CNEr.dll
ec85324af0f35f446e7f94ec7477fd3c *obsolete/CNEr.Rnw
6922454ebccccaa223412f1e90952a48 *obsolete/alignment.c
3b502ef13330de1cd98dc4288a6f43d1 *obsolete/ceScan.r
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0b52e0839eedfa011db6788f30472403 *obsolete/class.r
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b9b504316a8eeb190646972e165f979f *obsolete/src/ceScanBranch1.c
ed4391ac6a30aa3da32d63d7cbf5b17a *obsolete/src/ceScanBranch2.c
0a1fe70559c587a9104001f5203af75d *obsolete/src/compile
9e3c821c3f64ccfe466aa466d5f82ec5 *scripts/danRer10Pipeline.R
5f67d785a452ecc6f8168088a7b8b0c9 *scripts/prepareData.R
