Bio::ViennaNGS v0.17

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 test