28993e6dd12fd982f29df64401c033e5 *DESCRIPTION
fe3bd1b0fddb7ba065a78c233ddaea35 *NAMESPACE
df53fe987059f8b1594e1e129eba1803 *R/DEXSeqInterest.R
62e17e4687f944ddfba55e389c3675d9 *R/annotateU12.R
b2498ca1fc303452862b3441ef8caf48 *R/applyOverlap.R
263b9bf9f33cdfc145e1c41cc1622bc0 *R/buildSsTypePwms.R
ea22d51f6a0cdf12e86ed6f6b35ae288 *R/classes.R
0fcea2c93efaaf3a8a493b50123fac4d *R/deseqInterest.R
2c08f49ff31d96864f43573956bccde4 *R/exactTestInterest.R
928899eaa336a5ea636d80872bc52154 *R/getRepeatTable.R
c0fccb674753a6ad777f406770dcda90 *R/glmInterest.R
d3429c4cdb9dc52d33787b76a0758310 *R/interest.R
1691c7250208a7b118b5c6b488a599a4 *R/interest.sequential.R
8669089111c29faaf8f30a5cdb94661b *R/interestAnalyse.R
eecef0961002055b3a5119109d00a1a3 *R/interestIntExAnalyze.R
f12790a56e9f71e21b32b08be00aba14 *R/interestIntExAnalyzeStranded.R
576a1779e3745fdd505c4323eaa72d2e *R/interestResultIntEx.R
5bdbed721a42b9fb68cca4880ab0fb73 *R/interestSummarise.R
30dd6310b0733ea2dce5afc9421a0bfa *R/intexIndex.R
bfa81adf5deff38eeecee7bef690a8bd *R/lfc.R
02fd5eae288e0e441c82a7084be68a43 *R/matchPwmToReference.R
07e754dd3536e0b78fa7a5723a8af4e4 *R/mergeInterestResult.R
fe375e612735011316abba2a1ad7a73c *R/psi.R
1017fe6048d5b5b6ae8c9c943b927809 *R/qlfInterest.R
618df9a1da76da32ab6d305c401d191a *R/readInterestResults.R
155223595df6a51154bc10cb3a5ef01e *R/referencePrepare.R
cef4eef09fcb6265bdc2baf9db305f63 *R/subInterestResult.R
6abc84827bffe96b255ad37b67dc9249 *R/treatInterest.R
8503185ea09a9fc415b658f4ec3ef04e *R/u12Boxplot.R
01d75721bc8c27e67d7cedf4784ef3fe *R/u12BoxplotNb.R
b492d84bd44fb5df0384721889197e86 *R/u12DensityPlot.R
25b2b09c53416bf868334a2a61764346 *R/u12DensityPlotIntron.R
27d1ae16a8d687dcdfd747926ecedbff *R/u12Index.R
1c33be52261314ba36ae2275ba9d9278 *R/u12NbIndex.R
edec4705a944e7001fd863ad1a0bea7b *R/unionRefTr.R
5921fbc8fe61b864d0a84f0a0e5a1bdf *R/updateRowDataCol.R
4d3a1dd98b0a5b224ef570b1bbcc3fca *build/vignette.rds
b8699696dd778cbbdd7fd92b4023c4fb *data/mdsChr22ExObj.rda
02468f4643a513b3e184287c73e6535f *data/mdsChr22IntSpObj.rda
fe77df870302ce7a2f4ecfb6c863b221 *data/mdsChr22Obj.rda
d3a71219128321a70290bd5b4737f72e *data/pwmU12db.rda
58656c6475496fd7707df74602ac447f *data/u12.rda
d140d4767694aec711a45629c4bf648a *inst/CITATION
9ccd9379f11f3f1498bd6bc033ef5769 *inst/NEWS.Rd
1137a096523433415bfd11a95fe72ff7 *inst/doc/IntEREst.R
f3a094dd1adbd6ff24882463b78ed0e4 *inst/doc/IntEREst.Rmd
cc5e62d8297c33987189c0530b58bcfb *inst/doc/IntEREst.html
4f43aad2ce08b228782080ae32f2defa *inst/extdata/small_test_SRR1691637_ZRSR2Mut_RHBDD3.bam
4cd122c32f8d77d8eae0f5a12a795dbb *inst/extdata/small_test_SRR1691637_ZRSR2Mut_RHBDD3.bam.bai
9fc27cede89619ec54d0537f8d2be78d *inst/fig/IntEREst.png
f2640d82582e7a8350bf55678e9be4b5 *inst/fig/collapseExons.png
5c26819b727bdbe23c44019cbba2f1f7 *inst/scripts/allTophat2Runs.sh
7af0a5d9c989c920a548e068a96560fc *inst/scripts/build_mdsChr22Obj.R
57780ce59df7a99c5fdc83c0c58a054f *inst/scripts/download-sra.sh
92041600236c67a60c128fb31f827d14 *inst/scripts/make_small_test.sh
f35e52358041852ee950d25d62cef715 *inst/scripts/readme.txt
f3934552c8219c7341d1bcf7cc052f3d *inst/scripts/selectCh22fromBam.sh
64176da824c7c0f0f0a3f0de8fd019b1 *inst/scripts/sraFilesURL.txt
77318c7e265d3d0741415acdb28dabe9 *inst/scripts/sraTofastqConvert.sh
7898c5972c306082be19eb1d944124c8 *inst/scripts/u12Regions.bed
7e3f2ec7b7e917ca6afbad7ca0b21433 *man/DEXSeqIntEREst.Rd
671ededbb5834a8bcea7041f1b1b9f77 *man/IntEREst-package.Rd
a6e2ec6f864535a92616340fb1bf7b8e *man/addAnnotation.Rd
d7509585f1fd67f90741bed01ca00cdb *man/annotateU12.Rd
57bbd6386db37a5c29b6838d5764a13c *man/applyOverlap.Rd
15133a949db59c9b91b44ec2890f3a13 *man/attributes.Rd
15b78e86ab14603ab90b99c1a1187e02 *man/boxplot-method.Rd
1c8c6c5f4032dc14a641353ecb31d35f *man/buildSsTypePwms.Rd
6e6c69ff5ac8f3c6df8ffa305d4e780e *man/counts-method.Rd
3836504009c85d3790685940e2b71241 *man/deseqInterest.Rd
13e849e3dd7de483290d5898a814a119 *man/exactTestInterest.Rd
647abb6e63c0c94b0468bb2c288b4bb8 *man/getRepeatTable.Rd
a7044c375229673771fe047f4386c608 *man/glmInterest.Rd
7848c801385a23fdc651dd15ce15918e *man/interest.Rd
fb6b788136894944bafdc93640b6a67e *man/interest.sequential.Rd
a4cd25a462360da0cd6b2095a9de33fa *man/interestResult.Rd
1572b17e192ccfdf149bb01fe3b2ed88 *man/interestResultIntEx.Rd
93f97d4fedf45efc3a9bb62b80bdd557 *man/intexIndex.Rd
c0d6ceec3f9e06c8a698379c5d481937 *man/lfc.Rd
bd7061338032ea5c21b59f566fafc7ce *man/mdsChr22ExObj.Rd
cfe1c492875aab77727fc08c3e56b52e *man/mdsChr22IntSpObj.Rd
ed828d24f6a8cb578011fc65a4369be1 *man/mdsChr22Obj.Rd
c627138b24d389373d7d77509c0ea8a1 *man/mergeInterestResult.Rd
e83f92057953d756ed41e47b336bae9e *man/plot-method.Rd
293ab814ba27b69c6550a5aba17e1938 *man/psi.Rd
ac2ae33fc828288ba4b1f4c6c651adc1 *man/pwmU12db.Rd
e125b7e48c935d1efb14fc4f4f38d41e *man/qlfInterest.Rd
6c5e308984b5be251f8b2c156683d081 *man/readInterestResults.Rd
a4b0119c7ab5f6663244974ee0543cfa *man/referencePrepare.Rd
2940725a4debd5a4bfd128d4e301fa4f *man/subInterestResult.Rd
d854fbabc166196f99a46559125899f4 *man/treatInterest.Rd
db6551cce8232c88edfdad8c7a35d24f *man/u12.Rd
28080d1b6ddafaa36b6317f6f5ae95e8 *man/u12Boxplot.Rd
efef7f7c1cee072415315f6989336393 *man/u12BoxplotNb.Rd
88bfc8ad7ad3863bd610aee054899eb5 *man/u12DensityPlot.Rd
f6acc0ffa0dfc4cfe0c5db436c9704d5 *man/u12Index.Rd
232bb3f4fd5c6f5bd41cfccac0824463 *man/u12NbIndex.Rd
b53a51f9c6849aa03c8f5a197cc52416 *man/unionRefTr.Rd
6dde67dcaf265ffdcfdac525dce67b2a *man/updateRowDataCol.Rd
f3a094dd1adbd6ff24882463b78ed0e4 *vignettes/IntEREst.Rmd
734be15a9e3b6b6002405d243fc730f2 *vignettes/ref.bib
