759643b4725630df6dce89d27d4f9e99 *CHANGES
e8a6b503bcaa890256ccbd96d9b1b0a0 *DESCRIPTION
9fb5ce0c170593c6d69719e7f7a1fe2f *NAMESPACE
01badfc0e754278edf3f60a9ce1ce93f *R/AllClasses.R
e836e71ab06b07cd3e2bffbcad7c1ff3 *R/AllGenerics.R
1b2080338551cf0ff462a120093b43d7 *R/functions.R
0c154da15763cec47004977a42e5f5cb *R/initialize-methods.R
1284894e9f837392655a4c4206d51208 *R/methods-AlleleSet.R
ea45819617e75b3abd2d000053495afc *R/methods-AnnotatedDataFrame.R
64fc8213d434cd3ebda9759afdd81ae7 *R/methods-AssayData.R
7790bb22543f5e758638863200e087a9 *R/methods-BeadStudioSet.R
eab41d71131ed7ba62d7dde6358ab842 *R/methods-BeadStudioSetList.R
2d3792c6b789d5e78f3bd692baf54e01 *R/methods-CNSet.R
c39b72de1c75ab0e776ce0baf0bc70f2 *R/methods-CopyNumberSet.R
ac6c575d9a080a5b7c01229e66b62302 *R/methods-FeatureSet.R
dfa82786eff23473ff9f94ecc1c36297 *R/methods-GRanges.R
12fbd087f61e326724ed3bf69ff5478d *R/methods-GenomeAnnotatedDataFrame.R
5b2ad2e1fd79de8a9456718e140ada30 *R/methods-PDInfo.R
7dd99fef00077537c765a768a69a1459 *R/methods-RangedDataCNV.R
93fce26799d6edbc2bdbcedb4352f6ba *R/methods-SnpFeatureSet.R
0d6ba9a9bf43a1c5e76a16abe55771e5 *R/methods-SnpSet.R
65ad644489a5c78b341cf1d8c1363487 *R/methods-SummarizedExperiment.R
f69a9de72ece9b92b4e59185304431ab *R/methods-gSet.R
abd0f7ec2d873292a4fdc69d6f5099ba *R/methods-gSetList.R
b02a464b8af074bf99d2a5521fb7995b *R/methods-oligoSnpSet.R
d4d86bb29842d78e89ff60acf6e1a0d2 *R/show-methods.R
3ce93d402e8f64fcc8df9908cbbaceef *R/utils-general.R
09d4f0088c53ed966c2cf9c2c093b39a *R/utils-lds.R
f87fed4d85b9a3046532b629771b89e4 *R/utils-parallel.R
ed6a0a38225b26e3fb2a1fcb7f22e16b *R/zzz.R
7d703b938c71f596a683b96f751ab73c *TODO
803becc216a5a670f3e52339c24dc44b *data/efsExample.rda
8593bdbb95a7e75a75f91f58f3abeb6d *data/locusLevelData.rda
d149da60dbea5f97ec2f90dd15aba811 *data/oligoSetExample.rda
201ac2027e9b193f17b935e94234d4c9 *data/scqsExample.rda
f245c69e14b2efb34fbc1300a235ed5e *data/sfsExample.rda
6d5583d078ac6be3590be41947efd887 *data/sqsExample.rda
7fad8ed1a71a7077433dba4ba2badf36 *inst/NEWS.Rd
50a13c79c4db63005bc3337c4cee0821 *inst/extdata/gap_hg18.rda
2469cf0af59e3b6ce40b3aa8b6efa33d *inst/extdata/gap_hg19.rda
0d99a0bcba287fd4e67cbe27ae4ff67d *inst/extdata/genomeAnnotatedDataFrameExample.rds
f3cce8ea9e30b570a46b77eb454122f6 *inst/extdata/seqlengths_hg18.rda
1663931800a3dd954158ead37e7f1475 *inst/extdata/seqlengths_hg19.rda
165dba4516224b19c3c39f5cdb72a111 *inst/unitTests/Makefile
72c4241fde5d3f2b47684a270358a016 *inst/unitTests/test_RangedDataCNV-class.R
2c1cca993e845dce65a0d8d5e9eb81ea *inst/unitTests/test_annotation.R
d8c48374e45c28542de8278233d70007 *inst/unitTests/test_classes.R
1cd583ccf9adb66ec849fa904ad82a73 *inst/unitTests/test_conversions.R
730fab62c4dbd8d1bccf9a88be0dac02 *man/AlleleSet-class.Rd
810a6033ecbafffa9a2db34fc8d0e2fe *man/AlleleSet-methods.Rd
f7f65bff01e7620d334b0bc1e2a41608 *man/AssayData-methods.Rd
e8b788bf7e080f04e865124f2ead92b8 *man/AssayDataList.Rd
fdc10338cd87b46ea04e02aefb28dde0 *man/BeadStudioSet-class.Rd
7e27fa07a76c7271c8653028514e8e70 *man/BeadStudioSetList-class.Rd
17dc4be536067e6250104f2985850c9a *man/CNSet-class.Rd
0dd35e184dbc7d9c68fdbb51859d2b80 *man/ClassesNotExported.Rd
2c142ca177ca65ea31a0430ee2c9f88f *man/CopyNumberSet-class.Rd
e7de9bce9ac7ef586447b76a65018110 *man/CopyNumberSet-methods.Rd
b923b03f3ed6d23e05c72b7ffb171033 *man/DBPDInfo-class.Rd
36acf453718f7293823837e66adf2bc0 *man/FeatureSetExtensions-class.Rd
d81cba5af461772b6e0cb190ff1da7c7 *man/GRanges-methods.Rd
1c0bd5ef227d8cc50f7b7844baa9f945 *man/GenomeAnnotatedDataFrame-class.Rd
5bd33f9cc5fa63209637024e855f4442 *man/GenomeAnnotatedDataFrameFrom-methods.Rd
85e94feb2ddbbe059c4530ea4a8187c9 *man/SnpSet-methods.Rd
471cb412a53aa3f3d6c7f03e9cafbd2b *man/SnpSet2-class.Rd
02a4ae3dade12035c9e643796e973cd0 *man/SnpSuperSet-class.Rd
5d889ba03fe821438101d085e8e3e6c0 *man/SummarizedExperiment-methods.Rd
c08909f6fc5ab7e28b9cc57b85ffe289 *man/affyPlatforms.Rd
bbe82f77bf0dc03d0c682b46c5c66e19 *man/annotationPackages.Rd
0f74c3809cff7f4e4286a91dcc702cb8 *man/assayDataList-methods.Rd
218eafbbdd73737d60b2e1fd4a6afe55 *man/batch.Rd
3711730e3b23dfd6fb6554cb7fe4abdf *man/batchStatistics.Rd
60a431a6899fb458ef3b9535af954614 *man/celfileDate.Rd
37eb40ae027effc8862215f1ce8cc0d7 *man/celfileName.Rd
18ca0595cb10d49f0c955ab14bd98178 *man/checkExists.Rd
ba54423256c85cbf4a99482605308508 *man/checkOrder.Rd
82d2fe40915923820ac5c146e70e16d5 *man/chromosome-methods.Rd
0723b8c8ac309419887834adeb1182d1 *man/chromosome2integer.Rd
1b188837827590c62b9df5c71e936c52 *man/clusterOpts.Rd
d65f5975f52a43c5613825ab6fd26414 *man/clusterOptsDeprecated.Rd
d624a922828e2c3f434030f3fe124f93 *man/createFF.Rd
e66ad66aa413943d4f350338eef70a40 *man/data-efsExample.Rd
d025e0c7b8b8d2f684e985b7d6fc4149 *man/data-scqsExample.Rd
947573f62978b8e5b1dc50657f33c28e *man/data-sfsExample.Rd
e0ef30a6b97d4f4963d96326e79dabf9 *man/data-sqsExample.Rd
2b3747d0ee899bd25049081db15df9d0 *man/db.Rd
f217b2212b903fda374e61159d4857f9 *man/defunct.Rd
0e70732c86fee9ca1eb22094e638fd0c *man/exprs-methods.Rd
ec6659061a9aa01b539f967c332ea4db *man/featureDataList-methods.Rd
7a4841138496ea42adfc7745d6059299 *man/ff_matrix.Rd
00c6ed9ee5bc7b10fbb21cda868a3a1e *man/ff_or_matrix-class.Rd
b494eebde0f4dd1f1d1d1269c0601dcc *man/ffdf.Rd
1ed305220fb7e631ad90882234087a29 *man/fileConnections.Rd
cd154765d1e83c0e34ad6affa29a5891 *man/flags.Rd
cd7c5743acc77f8d3273cbbe08298bc8 *man/gSet-class.Rd
e823779406cef40e943b9f8b604ffb86 *man/gSetList-class.Rd
722643cce53bb306ce2c4070ef5a70dc *man/generics.Rd
84ac0a7dff7c72c6b9d51bbff0f0801b *man/genomeBuild.Rd
865a116ada6668f34f5be2f283ccd397 *man/geometry-methods.Rd
7475104503140f30f1b6d3d81fb89bc6 *man/getBar.Rd
26ba56c6d608904b50e6a9726fa562e0 *man/getSequenceLengths.Rd
03b20ef4e537176341d3cd0476b53e37 *man/i2p_p2i.Rd
4b01e6e4ff8bfb47b9011af1d5bba0a9 *man/integerMatrix.Rd
ffe7de8254a710961500b3ae7064e46f *man/is.ffmatrix.Rd
e4256584d1051376581284bd848a61f0 *man/isPackageLoaded.Rd
8e499624945d67b850ad5d9fb1047c00 *man/isSnp-methods.Rd
46d8b392a3ecfacb86f4a487258df91b *man/kind.Rd
09600850aeee6755eead00f8632405da *man/largeObjects.Rd
1a7d231c5e13efbd8adef2ccb609baa5 *man/ldOpts.Rd
ceedcfbf90af0932553a6e694269e456 *man/length-methods.Rd
80034192ea95d4002c9990481a362cb2 *man/library2.Rd
5f9d92fcc961f0340de9f5a8cd0533b3 *man/list.celfiles.Rd
9eea6d2220817a46ee0e6d23f0df3b92 *man/locusLevelData.Rd
90fbb31922122676195961d46c04380d *man/makeFeatureGRanges.Rd
305d72264b9132e19ab0eab687610658 *man/manufacturer-methods.Rd
3aa77df4eee0c188b438ff255a2c053b *man/ocLapply.Rd
410fa0ef8f18426108a7844b6c1b2911 *man/oligoSetExample.Rd
291b3a996b8e4d381b234ff4e54e2f2f *man/oligoSnpSet-methods.Rd
6a8378eb16d62501b76a398c1ef626ee *man/parStatus.Rd
2cf3066a3e99ba35fbb8073f4926a728 *man/pdPkgFromBioC.Rd
d9751edd71b2a1f3faed791e7af17e35 *man/platform-methods.Rd
434c7bdddddc9fa034e74f4709690d2d *man/pmFragmentLength-methods.Rd
8a51b8ad28d79af4dc69aed5914e229c *man/position-methods.Rd
1dc5bdbaff96ec88d1e04a2ffc213b7a *man/requireAnnotation.Rd
289823d263896274055269f7c45e0ec7 *man/requireClusterPkgSetDeprecated.Rd
449e58f473ee84e438040349db72f41e *man/sampleNames-methods.Rd
65a7f575230f64ca99e8ea7998296938 *man/splitVec.Rd
2ee2bacbdf339266ff750f9ee35bef49 *tests/doRUnit.R
c4b2ff12fea2179d91d10780f51d3502 *vignettes/scriptsForExampleData/CreateExampleData.R
