a3bb1eb45c2212a4d66c2e4984f7997c *DESCRIPTION
da10e05689446201a6a6c75e67fa9d49 *NAMESPACE
3a04f0e4f3bc116ac5890bb82fa44a1a *R/AllClasses.R
b8a419367ec970fba75d06d286eaefec *R/AllGenerics.R
1ebd64092ba2f3560c9c5f4babed7857 *R/calcFractionalCopyNumbers.R
30459b368b47c05812f626bd14e6f0ca *R/calcIntegerCopyNumbers.R
3bf05efb2bba0dbc6e306cb6dc4f7a59 *R/cn.mops.R
7929050290959c7033124c2744ea6a81 *R/exomecn.mops.R
334df5b4984d7b2408f287ede64f72e0 *R/getReadCountsFromBAM.R
f672d18d2c0173bb3e0184cb610d22c2 *R/getSegmentReadCountsFromBAM.R
30a37f5ee239b7d180e1bc86f2b7786c *R/haplocn.mops.R
37e0d1378894c96ed332ba3b56de474b *R/makeRobustCNVR.R
ddd8e41f4973e1df0aa2e7fe8b6a8f36 *R/methodsAccess.R
df35e58816cb7a6ebf98ca05f14245db *R/normalizeChromosomes.R
5eaf43ebbf5f4b1165d811fc75c17e38 *R/normalizeGenome.R
49612ea2eb4aa06f24e9327f29640e13 *R/plot-methods.R
55383508073618d9c9277136849437cb *R/referencecn.mops.R
1ef4ba809c42454f7a96986390680580 *R/segPlot.R
d5e2570cf3968b05f4591f52622a73f0 *R/segment.R
4d35ff11f155402522fcbc4d2bc043bd *R/show-methods.R
78a05b080093870e988abf45416443b6 *R/singlecn.mops.R
ba876ec9b021c252effff95cfe49feb6 *R/zzz.R
5dccfec3a5d691c6d7a13b0c02e9965e *build/vignette.rds
5a636d8817d52a201ce365c8e00dceed *data/cn.mops.RData
de5edd5d8ab20cc381cd42f875790f66 *inst/CITATION
a6b13f3b6512c4577941ed29595cd548 *inst/doc/cn.mops.R
9cc5c82d39b5f09050476dcb41a1f4c6 *inst/doc/cn.mops.Rnw
353f9a332fedf4f91d4ceaf65665743d *inst/doc/cn.mops.pdf
d9c0e84ddc2c91e313a9f84818f56613 *inst/extdata/test1.bam
92d8aa852e2d93a9e95fe99bd3a4ac80 *inst/extdata/test1.bam.bai
d00ee6c4a5a916fbd59d01bff5d547b7 *inst/extdata/test2.bam
a2447aadc179e7f8952642199bcd1ffe *inst/extdata/test2.bam.bai
716ce52b3f0cae183633739d8f626221 *inst/extdata/test3.bam
a62e85fac91c431c6d8dc9d1ddbd4653 *inst/extdata/test3.bam.bai
9867e772a166bb1ceef63ac5a2df8f52 *man/CNVDetectionResult.Rd
5e8dee28f7c937d9c86929881636e578 *man/CNVRanges.Rd
8d8aeedfd946abd1d88aad93d2ea42d8 *man/X.Rd
a32f877acde2702f573ed5b17182e9e3 *man/XRanges.Rd
f30c4c42afb773d78a87613065b3812c *man/calcFractionalCopyNumbers-CNVDetectionResult-method.Rd
0e46c6dc628e9c922daf253415e49079 *man/calcFractionalCopyNumbers.Rd
8c354e2dcc327f6653ec890bb3984ba6 *man/calcIntegerCopyNumbers-CNVDetectionResult-method.Rd
cb1c3fdd56b196aaef9ab56b785d20b0 *man/calcIntegerCopyNumbers.Rd
0ee2ef8bd5708dda10e65a97e2c05b99 *man/cn.mops.Rd
0872367d8777fe795163d2f334756a9d *man/cnvr-CNVDetectionResult-method.Rd
b150a808fb97e5d404b740877f20020b *man/cnvr.Rd
8263a9459dd80ba0ae600447f7ea1921 *man/cnvs-CNVDetectionResult-method.Rd
c43163a526a1164156b9749226d0b56d *man/cnvs.Rd
b67144f7cfe2d5b87c8e9f2af74227b4 *man/exomeCounts.Rd
e6694d83e0f1fd90085e8beec81cd343 *man/exomecn.mops.Rd
66a19b428506cd4853ccf8ec90da5bf8 *man/getReadCountsFromBAM.Rd
a7ac988fb06ca9244e94292e8a2b693c *man/getSegmentReadCountsFromBAM.Rd
0c475d2f9b037870956be5d27ed87cc6 *man/gr-CNVDetectionResult-method.Rd
30c7d704ab1ee891132607721b582d76 *man/gr.Rd
cf3c4a33c7d469464c387f1b2435e620 *man/haplocn.mops.Rd
a269e4e051457e88972713b9b8014f71 *man/individualCall-CNVDetectionResult-method.Rd
8c5770d6091a76865bd010562364cc5b *man/individualCall.Rd
b6a53fefafbdfccc944050a0460d6188 *man/iniCall-CNVDetectionResult-method.Rd
1cf6eb5166097641455eb60659c2bdb6 *man/iniCall.Rd
23307a427c70fd8c32e84346eb7678e8 *man/integerCopyNumber-CNVDetectionResult-method.Rd
529abc3e67048a147204c89a68405485 *man/integerCopyNumber.Rd
09df99ff32891d215c4f07265fff16a5 *man/localAssessments-CNVDetectionResult-method.Rd
0043471684a6411813bca0c643b071e7 *man/localAssessments.Rd
63e3056752dec3e24ad5b0ea3d6db855 *man/makeRobustCNVR.Rd
3bc0c0d11b3cb71c07afa8f90e5503e3 *man/normalizeChromosomes.Rd
1fecd069506b181c89c642acdabedb42 *man/normalizeGenome.Rd
2f982f05b2359b994155442d6df7bb11 *man/normalizedData-CNVDetectionResult-method.Rd
501fbc22d3548b805c9419f3b39dce7d *man/normalizedData.Rd
8293f6df89f234cfc8d3c87ea33a57e8 *man/params-CNVDetectionResult-method.Rd
c7881900670d8d20bbc719dc25aaafd9 *man/params.Rd
a5e0036b5f67cc07c1041d0c3766e16f *man/plot.Rd
92233c80722410dff79cb25b69081aec *man/posteriorProbs-CNVDetectionResult-method.Rd
800557f4aa1841e8408a336327469f84 *man/posteriorProbs.Rd
7f7a8b8e166acee1f1bb52434daa64b5 *man/referencecn.mops.Rd
02dc34edf22913172fe6ca60661f66cd *man/sampleNames-CNVDetectionResult-method.Rd
7e21cbcfcc309042c5930e7f880d3780 *man/sampleNames.Rd
23a80e9c48b69938c791cf8912c4a4b5 *man/segment.Rd
64692d9d6793ad9f68f615bf1e579988 *man/segmentation-CNVDetectionResult-method.Rd
9c634002cdc69dddb6be823c8ac8c560 *man/segmentation.Rd
e5d97576db16174cd0ac1bdf8f9b63ea *man/segplot-CNVDetectionResult-method.Rd
5b6706c4c53f0f3949bc4be2a28573b6 *man/segplot.Rd
000b56e7e63a086b96cef91cf89df23c *man/show.Rd
a4821e17784200b64babbacc17ca78c7 *man/singlecn.mops.Rd
819224423566be2e48b9e41099af893f *src/R_init_cnmops.c
8d02e5f99859af4907bdda6819f37e53 *src/cn.mops.h
5c85cc81e41f1b90c71f8ef2f8e5bf8a *src/cnmops.cpp
132ba889b85ec7d874cef02fe854441b *src/segment.cpp
0ee0d701f61a0631126fa8837ef470cc *vignettes/bioinf-article.txi
796c822a42721e608226ad8b86954533 *vignettes/bioinf-bar.png
23125e2328ab7a57b9719b94f9c15101 *vignettes/bioinf.cls
9cc5c82d39b5f09050476dcb41a1f4c6 *vignettes/cn.mops.Rnw
140f7910d4dac0567b436b9aa4b74657 *vignettes/cnv.bib
422b02faf00a676c819b13b81ec67e99 *vignettes/natbib.bst
adbbf2c54998cc55da9dcaeb7647ec94 *vignettes/natbib.sty
