8c1ccd1348358e27cb9523832fb1cbe9 *DESCRIPTION
6c9723e6113392764f7caf8cec3d5237 *NAMESPACE
de67c967b4dec03128aaedd59b3134c7 *R/clusterComrades.R
39e90a87685455335a3d4730aab457c7 *R/clusterComradesMethodsAndHelpers.R
f3e8d5fda9d3beca1545d94d6b5d36b0 *R/commonHelpersAndMethods.R
08198e469520b1713ff436d32f5d6e19 *R/commonStatsAndPlots.R
60c4cec30bb4b62e87023efac1316b97 *R/comradesDataSet.R
a399f0ae1c6983f6f5eead290cb8176f *R/comradesDataSetMethodsAndHelpers.R
2bd0c81a7ae929d388f1da885174fa1c *R/comradesOO-package.R
d7a30fba82d598b09094ad8f739903d5 *R/comradesOO.R
21d660ea39c7ef768211efe72bf2e294 *R/foldComrades.R
e64a4a6ee2cb32dd181cc590b8846c4f *R/foldComradesMethodsAndHelpers.R
0c2deac5ecad6e968d41ac57162e8bb5 *R/genericMethods.R
52b85bf0b4549712d285f613877b6f6c *README.md
f1797b9dfea46cdc7dce1b1a13ef36cd *build/vignette.rds
41cb0c2de59c572ef70a9825ca60c39e *inst/CITATION
169a55f0093a2266255e8aa854da8758 *inst/doc/comradesOO.R
e6296336071a9da1066e9f5f1dff323c *inst/doc/comradesOO.Rmd
d9208e0b150fed44b8ae7324bcd52b35 *inst/doc/comradesOO.html
ea7c471a905e934383132d2902c56f06 *inst/extdata/18S.fasta
a9923ed3a2df2fee824a3852e1d77900 *inst/extdata/c1.txt
0b658809858e6f710b33167cfbec4219 *inst/extdata/reactivities.txt
1518b293a9dc6360748f6a676913c647 *inst/extdata/ribovision18S.txt
2c1fa21ffab059a7d1b57ef3f7c2ee62 *inst/extdata/s1.txt
1c0ac8644147eed0268b694fa3f84ccf *man/clusterComrades.Rd
94f8bfbd234bce7e3d72e285aba8c0cd *man/clusterGrangesList.Rd
e0f55f9d69d132683506406edc39a6c2 *man/clusterGrangesList_set.Rd
d2b4b3a793d6b7c32612c6db60d3a463 *man/clusterNumbers.Rd
c191492047a70234ea40082405982eef *man/clusterTableFolded.Rd
6cd9658e9cda0c5c77aba914721a280b *man/clusterTableList.Rd
1849480b07311f53a76d7a1db6b70683 *man/clusterTableList_set.Rd
4af6a0f6b1b9597d23b722d5a2800eb2 *man/compareKnown.Rd
091e2f2377efc79eb2aee037656a8d2f *man/compareKnownStructures.Rd
157bb31227aeb7565e249f9afc0b7556 *man/comradesDataSet.Rd
5c633e73e4915b424327ba8e48e2f93d *man/comradesOO.Rd
676e67beca6e6ce5c94f54091700e8ba *man/featureInfo.Rd
aa6168165775f06e3330ebbf8b8bf8f1 *man/findBasePairsRNAcoFold2.Rd
3c201039dec0af03b6f8828a62035694 *man/findBasePairsRNAfold.Rd
2811f8f3ef79a0064e95aa45e683d932 *man/findBasePairsRNAfold2.Rd
56ac51336088a26787d0e7f9ea0939c4 *man/foldComrades.Rd
e60ae198f61035ed701dbc886b8fe21a *man/getAdjacancyMat.Rd
2edc531d4ea18bfbd88c51e24dd50403 *man/getClusterClusterShortRangeWhole.Rd
f21247973040d7dea36097610a993a04 *man/getData.Rd
f98a8848c2b23af1f2d6ca6b27904a12 *man/getInteractions.Rd
5c242657052059dcb8facf36e61c1ac9 *man/getMatrices.Rd
72060aa2d3bbc2fea6fa4726fcb795b0 *man/getReverseInteractions.Rd
11a931d9b1a86d5adc04980acff4e225 *man/group.Rd
ec464d0a3dfaba9c18b33abb6734aac2 *man/hybFiles.Rd
47733dcd087d28b09d2ea9f6cc08936e *man/hybToGRanges.Rd
f3d05a665a0995e5ba140461882f99bc *man/makeExampleComradesDataSet.Rd
afb2d33785526b0ec5c132e5fc763cc8 *man/matrixList.Rd
7c94bcc7c0935bf0aed80d5f9bab561b *man/matrixList_set.Rd
7559aef1da3e1d67ce33ba089b3d53d8 *man/plotComparisonArc.Rd
37adb5d295336bc6218f8d5e52d24b06 *man/plotEnsemblePCA.Rd
c2c9bccc9a49fc5c7da81f9fd0a2d0ff *man/plotMatrices.Rd
9b1b45634ae824ccdcc90181bb10b798 *man/plotMatricesAverage.Rd
e6f876e6dcc67f4a6b6e46dbf3abf731 *man/plotStructure.Rd
eb3e1ccf5f879b3da9c1d778df5656e0 *man/printClustersFast.Rd
5380911f9c686fa57adc91e33fdf3957 *man/readNumbers.Rd
3d8c9ff4488edd4ecfd84ccec8c62aba *man/rnaSize.Rd
d82570c9d2efa6fe19b976d7e8b95fb4 *man/rnas.Rd
367103b5235f38df937f541be1a11948 *man/sampleChimeras.Rd
6a4823b9626ceeaaa0489b933d6b289e *man/sampleNames.Rd
02b0244fdd15979a1cd1864d73f26da8 *man/sampleTable.Rd
d94a4b77d8eb5448456ead1e773c46e8 *man/subsetHybList2.Rd
952bd40da4d62ad70151defbf282726a *man/swapHybs.Rd
aaafa2268dcdb9d7a63c7c4ee04ac656 *man/swapHybs2.Rd
bf5133dad25a78b5bac1130abdc56edb *man/swapHybs3.Rd
cf5f89423f811c30c66a93417fa2298a *man/topInteracters.Rd
4ce277fb53f94424b729786222e5bc85 *man/topInteractions.Rd
d971136a6100fc68e02aefa9c29238e3 *man/topTranscripts.Rd
d3840d6ea372cffc3f46d77b8b61f364 *man/trimClusters.Rd
d13b8a9ea6a3828aa11a9588e7794909 *tests/testthat.R
e6296336071a9da1066e9f5f1dff323c *vignettes/comradesOO.Rmd
2dd97548766f16d15478696b1dc238d7 *vignettes/comradesProtocol.jpg
95b64665a1f0768f57b1fe038bf16c25 *vignettes/inputFileSchematic.jpg
5af774c6a16e28eed7daf8a8a9e2dfe3 *vignettes/nf_schematic.jpg
a57833335a384080348ff579e7a307c6 *vignettes/schematic.jpg
