Published June 9, 2017
| Version v0.17
Software
Open
Bio::ViennaNGS v0.17
Description
- added Bio::ViennaNGS::FeatureIO
- added Bio::ViennaNGS::Subtypes
- refactored Bio::ViennaNGS::Fasta to transparently coerce input data into a Bio::DB::Fasta object
- refactored executables in scripts/ folder to new Bio::ViennaNGS::Fasta interface
- changed output format in scripts/bed2nt2aa.pl to csv
- removed parse_bed6() and extend_chain() from Bio::ViennaNGS::Util (bed I/O is now available in Bio::ViennaNGS::FeatureIO and chain extension is available in bedtools)
- added uniquify_bam2() in Bio::ViennaNGS::Bam
- implemented correct handling of unmapped reads in Bio::ViennaNGS::Bam
- replace '~' with $HOME in mkdircheck() within Bio::ViennaNGS::Util
- fixed output path creation in rnaseq_peakfinder.pl, splice_site_summary.pl
- refactored scripts/bam_uniq.pl
- refactored scripts/bed2nt2aa.pl
- added scripts/fasta_subgrep.pl
- added scripts/fasta_multigrep.pl
- migrated scripts/MEME_xml_motif_extractor.pl to Bio-ViennaNGS-scripts-extra package on github
- updated POD
- removed Tutorial_pipeline{0,1,2}
- added unit tests
Files
mtw/Bio-ViennaNGS-v0.17.zip
Files
(1.3 MB)
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|---|---|---|
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md5:359cd967e166d893c96f188b1473c6e2
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Additional details
Related works
- Is supplement to
- https://github.com/mtw/Bio-ViennaNGS/tree/v0.17 (URL)