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o Move sgedges2(), uninformativeSSids(), and sgraph2() to R/rsgedgesByGene-methods.R o Rename sgedges2() -> rgedges() and sgraph2() -> rsgraph(). Keep old names as aliases to new names.Herve Pages authored on 16/04/2013 17:59:45 |
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add '...' to plot,SplicingGraphs,ANY-methodMartin Morgan authored on 16/04/2013 12:36:25 |
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- Rename UATXHcount() accessor -> txweight(). - Add txweight() setter for SplicingGraphs objects.Herve Pages authored on 03/04/2013 07:25:30 |
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Remove 'gene_id' arg from txpaths(), UATXHcount(), sgedges(), sgnodes(), outdeg(), indeg(), uninformativeSSids(), sgedges2(), sgraph(), sgraph2(), bubbles(), and "plot" method for SplicingGraphs. Not needed anymore since selecting a gene can now be achieved by subsetting the SplicingGraphs object 'sg' before passing it to these functions (e.g. by doing 'sgedges(sg["geneA"])' instead of 'sgedges(sg, gene_id="geneA")').Herve Pages authored on 12/03/2013 05:12:23 |
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Change SplicingGraphs class definition and API so SplicingGraphs objects are now list-like objects with 1 gene per list element.Herve Pages authored on 11/03/2013 21:18:32 |
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View 261b473
Add bubbles() for extracting the bubbles of a splicing graph.Herve Pages authored on 06/03/2013 07:44:09 |
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View 334319e
Add "sgnodes" methods for IntegerList, data.frame, and DataFrame objects.Herve Pages authored on 06/03/2013 03:41:48 |
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View b72ecce
Rename sgdf() and sgdf2() -> sgedges() and sgedges2().Herve Pages authored on 06/03/2013 01:25:42 |
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View e401803
o Plot exon edges in orange instead of green. o Add 'tx_id.as.edge.label' arg to sgraph() and sgraph2(). o Add slideshow().Herve Pages authored on 04/03/2013 18:14:08 |
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View 5712a4d
- Split SplicingGraphs-class.R in 3 files: SplicingGraphs-class.R, sgdf-methods.R, and sgraph-methods.R. And split the corresponding man page accordingly. - Rename Spath(), Sgdf(), Sgraph() -> spath(), sgdf(), sgraph().Herve Pages authored on 28/02/2013 21:57:06 |