290ec75a5463c791ac195ee8d686f8f5 *DESCRIPTION
52f972c78a629224e10d57bb41aa9ce4 *NAMESPACE
fed7ffb98ce6c595e1ca6bcc06962508 *R/SplicingGraphs-class.R
66b47054a34ea942abaa9bc9096f872b *R/assignReads.R
b12f63d7f743374f9f2b9b5fd91b70b7 *R/bubbles-methods.R
d9ee5d3f31f6ab377126b29be088cc5f *R/countReads-methods.R
2c07f3d31e105d21b7e12bc8d81acfaf *R/igraph-utils.R
e8ac006b85ee94ab476e9d4d77820f0c *R/plotTranscripts-methods.R
83f50d39f3e8e625bcd00d5b3eae9a66 *R/rsgedgesByGene-methods.R
5f09ed49ccdd45172ba5d39318d0f7ee *R/sgedges-methods.R
84cd29ca73cccf887bac767535a23ef4 *R/sgedgesByGene-methods.R
161a6a94d884f7ea467f77a98583db11 *R/sgraph-methods.R
50704821e36c1ed4a1e87ccb3fbb8e30 *R/toy_data.R
c85641d95ce49bc24247b64485f831e7 *R/txpath-methods.R
0feb6a4d313c8193f8d308ad0099898e *R/utils.R
e0fb3e2a831aa18e091d3a8e8c29ccc6 *R/zzz.R
4d2f483dcb6c71456f80e8aff6960e91 *README.md
956c25babb6e600f8e2893eb20fc0a4d *TODO
5486bc7b006baa2efbdbbd91cd375e79 *build/vignette.rds
a9f78dd6bd4cc9a8bf581f49dc636f7e *inst/doc/SplicingGraphs.R
806e7451dd7bfcd4ce34bdb551578ce7 *inst/doc/SplicingGraphs.Rnw
d51282b0e566e348822410734895bac6 *inst/doc/SplicingGraphs.pdf
e927d6e86c26ef2f567f538e4d02c6bb *inst/extdata/ASpatterns.txt
ba72b09fd823dec580f1ee5eb2fd6a39 *inst/extdata/TSPCsg.rda
2496dff4893d460511d871a0c485aa6b *inst/extdata/toy_genes.gff3
648ca39416010bda3340da48c26912ef *inst/extdata/toy_overlaps.txt
62072a44e72d0ea965e19a12820417ca *inst/extdata/toy_reads.sam
34234e7c550cf53650d973cb48dee466 *inst/scripts/TSPC-utils.R
c7dc703596188e9ad57c63b174c23ee3 *inst/scripts/create-vignette-plots.R
44830c9a0141fe8277304d7419d7a20d *inst/scripts/makeTSPCsg.R
9d4c8d07718b4c1cf96e0c344ddf363e *inst/unitTests/test_countReads-methods.R
b01d4b152eada9ff5a150a092a988cd0 *man/SplicingGraphs-class.Rd
9eebd3a0736897dbc7deff1ec4fc1d04 *man/SplicingGraphs-package.Rd
f20c3dc53ddf6929f1b1dc01844b230c *man/TSPCsg.Rd
7bffd2ee386923ea742faabd144275ca *man/assignReads.Rd
ac5b7cf252a7922e4c6251c8463fde6a *man/bubbles-methods.Rd
4b8e35373f496755df53933c88c5c2d4 *man/countReads-methods.Rd
c29ece961381bdabdd1d547beac65763 *man/plotTranscripts-methods.Rd
c0f3b684c6601d630f93889f38ae2050 *man/rsgedgesByGene-methods.Rd
62d22c61a1ebd1d080f26e213f3decb0 *man/sgedges-methods.Rd
71cb447b6c66e07093a1b9c97430d432 *man/sgedgesByGene-methods.Rd
44d4fcacc274b75a3a9c8c8c9e0ed3cf *man/sgraph-methods.Rd
a8c21ae51d0d2042346a4a283bf3c13f *man/toy_data.Rd
ae1f0d16f0d8a037ce2856c81eb811a1 *man/txpath-methods.Rd
fb0ebd1e3703014da829934be56f19ad *tests/run_unitTests.R
806e7451dd7bfcd4ce34bdb551578ce7 *vignettes/SplicingGraphs.Rnw
2d86e9de6a6b8a207c9a30ac43dac4ee *vignettes/images/LINC01533-sg.pdf
4c44566f2c6d8b7e046ab724e90af472 *vignettes/images/LINC01533-sg2.pdf
1562d09c87b038dabe43b46e540e40bf *vignettes/images/LINC01533-transcripts.pdf
3e336f603159e1c346a9a5b31851eb5e *vignettes/images/ZNF446-sg.pdf
b2bcf215fe7af1c7a48112fd6c3fe74a *vignettes/images/ZNF446-sg2.pdf
2526e25cfc7d2cd40b6e54dd7540ef10 *vignettes/images/ZNF446-transcripts.pdf
4239c041449996da00386d2ba1fd2e2d *vignettes/precomputed_results/sg_with_bubbles.rds
