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View 7bc3409
Put \pkg{} around package names in the man pages.Herve Pages authored on 30/04/2013 01:20:58 |
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View 20221b4
Add SplicingGraphs-package.Rd and simplify cross-linking of man pages.Herve Pages authored on 03/04/2013 08:38:05 |
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View 7b279e9
New implementation of assignReads(): about 20x faster and uses at least 15x less memory than the old one.Herve Pages authored on 01/04/2013 00:40:20 |
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View 942a590
- Add 'keep.dup.edges' arg to sgedgesByGene(). - Fix and optimize countReads(). Current version is about 70x faster than initial version.Herve Pages authored on 31/03/2013 20:53:22 |
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View 7ff5c4a
Renamed txpaths() -> txpath().Herve Pages authored on 28/03/2013 22:58:26 |
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View 66886f4
Add "seqinfo" accessor for SplicingGraphs objects.Herve Pages authored on 28/03/2013 19:46:24 |
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View 1135146
More work on the text of the vignette.Herve Pages authored on 28/03/2013 05:40:57 |
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View 7916e61
Some improvements to man pages and vignette.Herve Pages authored on 27/03/2013 10:37:27 |
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View 6c1f410
Add sgedgesByTranscript() extractor.Herve Pages authored on 27/03/2013 00:34:42 |
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View 24537e9
Add cache mechanism for the bubbles of a SplicingGraphs object.Herve Pages authored on 15/03/2013 06:59:19 |
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View 808fe39
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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View 7774286
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 |