e1bf1ab0a47b70e6a9e6c554f9b0fd65 *DESCRIPTION
a17495d617d85fdb61ae9fc3b293c9f6 *NAMESPACE
b5a9add0ff62460b922378a638a64757 *R/clusterrnaCrosslink.R
4e4501033a4d330857cf975ebd555de8 *R/clusterrnaCrosslinkMethodsAndHelpers.R
7169b516aee3cd96fe038b1dae6514ec *R/commonHelpersAndMethods.R
28e66668dc567decccbb0e65efdf0ee3 *R/commonStatsAndPlots.R
a7cf24138dbc74e26176edf659754cd4 *R/foldrnaCrosslink.R
91bb147589588d63bce827d22f3bbd4a *R/foldrnaCrosslinkMethodsAndHelpers.R
014d9afe9a12f81e8fac9cace47f7af8 *R/genericMethods.R
4616365362c1befdf55e38bc6d9b2565 *R/rnaCrosslinkDataSet.R
8fd6798bfe57daee794000aea232bcbb *R/rnaCrosslinkDataSetMethodsAndHelpers.R
99fd34e10b8414c1896615bd177f0a60 *R/rnaCrosslinkOO-package.R
99fd34e10b8414c1896615bd177f0a60 *R/rnaCrosslinkOO.R
6fc1aa326bb6279ceee975d69cab635d *README.md
6ac6863e9ceb4b86750208f2b308119a *build/vignette.rds
41cb0c2de59c572ef70a9825ca60c39e *inst/CITATION
418b0e31163ad44a4b7e1d5e7c1a4492 *inst/doc/rnaCrosslinkOO.R
cc1ddd50fc0c83e7b67df1bfd5e21db5 *inst/doc/rnaCrosslinkOO.Rmd
3084980cb3901243f6c6c460b0d303b7 *inst/doc/rnaCrosslinkOO.html
ea7c471a905e934383132d2902c56f06 *inst/extdata/18S.fasta
807767f7d6055a773b3b6f1443af2e00 *inst/extdata/c1.txt
0b658809858e6f710b33167cfbec4219 *inst/extdata/reactivities.txt
1518b293a9dc6360748f6a676913c647 *inst/extdata/ribovision18S.txt
667700bcd2f683cacb91fc080275512e *inst/extdata/s1.txt
9d12922118414811f765bd0a595f550f *man/InputFiles.Rd
e76dab39f3b7b03e1d626ece7d84043d *man/InputToGRanges.Rd
6649db675ece5ee6edd791732f3c434e *man/clusterGrangesList.Rd
dbb3089dfb156629441a9059ddd22d1e *man/clusterGrangesList_set.Rd
503eb196f4e91173f6c63646892b171f *man/clusterNumbers.Rd
e9302dd7611f507979ff5f60146fc7ec *man/clusterTableFolded.Rd
0f6a7d6a0247cdc83668ccbcdaaa33a5 *man/clusterTableList.Rd
21f31df28516d8a6fb7aa5a793d71576 *man/clusterTableList_set.Rd
807e9be9b8a39b894ba2daa8f7dd85a3 *man/clusterrnaCrosslink.Rd
36f15527b3225afca165eda9a2b4e703 *man/compareKnown.Rd
9771b5e37b9bf60533bb748a0d77bb65 *man/compareKnownStructures.Rd
244ba9ea5b8809d829a4766556f2c72c *man/featureInfo.Rd
6d5be5fc5f48f407bd09237e43e08c29 *man/findBasePairsRNAcoFold2.Rd
e1660d59f85a383ab86916c6877f0077 *man/findBasePairsRNAfold.Rd
0b8608cb5dd59997b4ef86ec11658717 *man/findBasePairsRNAfold2.Rd
890fcbfcb2b43c03af7792641a74924c *man/foldrnaCrosslink.Rd
ef6a50ec7ba0f653b04ac918f3e7b2f9 *man/getAdjacancyMat.Rd
fb02aed4e23d892e8812b746f0e57ee8 *man/getClusterClusterShortRangeWhole.Rd
35fe2e2e35bb9854be1ce4a248437a1a *man/getData.Rd
9288114fe749b3fbffef9f3367584b42 *man/getInteractions.Rd
c3e1c0551f155145323c541a4485dbdb *man/getMatrices.Rd
b727059d21d82b19ac2704b7ff2812f5 *man/getReverseInteractions.Rd
e09638dd6235d209cd140352a6d80780 *man/group.Rd
e8d0b662910539ce83de9fa68a8bde8f *man/makeExamplernaCrosslinkDataSet.Rd
0073c76c30ff4d5d9fc2b783eae798ff *man/matrixList.Rd
1a384f83bd8e40bfa89d6e1ab8a36187 *man/matrixList_set.Rd
a7df1ef5e3628974d0bc17d923849017 *man/plotClusterAgreement.Rd
3bcc48b77e41472d587d1230c7d065e7 *man/plotClusterAgreementHeat.Rd
70bb07845517a1215025a21f643189c6 *man/plotCombinedMatrix.Rd
8b8b6c9d733203aca586b0d0dc925e3e *man/plotComparisonArc.Rd
fac27fed60c6b76213d7d927a4ca3f9c *man/plotEnsemblePCA.Rd
194473a65017d6584c7749ecde9042c0 *man/plotInteractions.Rd
589f654b10628c3c7b7664220422ef0c *man/plotInteractionsAverage.Rd
720b53413debdd6b2b35a8cd2d1ec478 *man/plotMatrices.Rd
5e5c3974d21b561113c693ccfaba0e61 *man/plotMatricesAverage.Rd
76767fc43a825feb1a540d4c2befd031 *man/plotStructure.Rd
f68486ba2a1e9fcb6b1b58b0f0e85ae8 *man/printClustersFast.Rd
eba76bf38583146014f32a62f67ef97e *man/readNumbers.Rd
397ad0a41cb8549834d3ffab05d4df9f *man/rnaCrosslinkDataSet.Rd
634f5a2e166b971bb2c06cd5c8398668 *man/rnaCrosslinkOO.Rd
abd8bb531e3dd40b12636a9c2f5a3d61 *man/rnaSize.Rd
0c062569f0e0043922d3bdb232fd608e *man/rnas.Rd
84c823c302ae0c5b1b453674d5118c5d *man/sampleChimeras.Rd
0ed4b742993d2175ba1cd22a662eac49 *man/sampleNames.Rd
afa997f4b77c46d785e41de411e807dc *man/sampleTable.Rd
d7ddd17460b3a34fd1b4acf8eec17a1f *man/subsetInputList2.Rd
70e0d2bdf654c0df31ecc18131d3f892 *man/swapInputs.Rd
21b1a97d53a5042f8c2cc0ffbbc91bec *man/swapInputs2.Rd
619898c2aae5a9753ad33653ac001901 *man/swapInputs3.Rd
e9b584e0eb5a66f4fa1643ab13288505 *man/topInteracters.Rd
0e5d5412d277325e2eaaf768ebc07675 *man/topInteractions.Rd
4e90fd27a219534550b737285aa2c35d *man/topTranscripts.Rd
bea765050333a851f7e8cad2f754a848 *man/trimClusters.Rd
e2685a0682c6fd3f43c8ddcab246fa87 *tests/testthat.R
2dd97548766f16d15478696b1dc238d7 *vignettes/comradesProtocol.jpg
95b64665a1f0768f57b1fe038bf16c25 *vignettes/inputFileSchematic.jpg
cc1ddd50fc0c83e7b67df1bfd5e21db5 *vignettes/rnaCrosslinkOO.Rmd
bb97b4ba646117adfb50ccf7a225acb8 *vignettes/vigentte_arc.jpg
f361c4e6c49ac237c92bdbb7e7c0acf6 *vignettes/vigentte_pca.jpg
650ec173a9f0692b5a5e07cb68ba9318 *vignettes/vignette_domain.jpg
