Author: tbooth-guest Date: 2014-11-21 08:38:57 +0000 (Fri, 21 Nov 2014) New Revision: 18504
Added: trunk/packages/bowtie/trunk/debian/upstream/edam Modified: trunk/packages/bowtie/trunk/debian/upstream/metadata Log: Experimenting with adding EDAM tags (http://bioportal.bioontology.org/ontologies/EDAM) to this package. Added: trunk/packages/bowtie/trunk/debian/upstream/edam =================================================================== --- trunk/packages/bowtie/trunk/debian/upstream/edam (rev 0) +++ trunk/packages/bowtie/trunk/debian/upstream/edam 2014-11-21 08:38:57 UTC (rev 18504) @@ -0,0 +1,47 @@ +topic: topic_0622 Genomics +scope: summary + function: operation_3212 Genome indexing (Burrows-Wheeler) + function: operation_0292 Sequence alignment generation + input: data_2975 Nucleic acid sequence (raw) + input: format_1929 FASTA + input: format_1930 FASTQ + output: data_1383 Sequence alignment (nucleic acid) + output: format_2573 SAM +scope: bowtie-build + function: operation_3212 Genome indexing (Burrows-Wheeler) + input: data_2975 Nucleic acid sequence (raw) + input: format_1929 FASTA + output: data_3210 Genome index + output: ??? Bowtie index format EBWT + output: ??? Bowtie long index format EBTWL +scope: bowtie-inspect + function: operation_1813 Sequence retrieval + function: operation_0304 Metadata retrieval + function: operation_0228 Data index analysis + input: data_3210 Genome index + input: ??? Bowtie index format EBWT + input: ??? Bowtie long index format EBTWL + output: data_2975 Nucleic acid sequence (raw) + output: format_1929 FASTA + output: format_1964 plain text format (unformatted) +scope: bowtie + function: operation_0350 Sequence database search (by sequence using word-based methods) + function: operation_0292 Sequence alignment generation + input: data_3210 Genome index + input: data_2975 Nucleic acid sequence (raw) + input: format_1964 plain text format (unformatted) + input: format_1929 FASTA + input: format_1930 FASTQ + output: data_1383 Sequence alignment (nucleic acid) + output: data_0867 Sequence alignment report + output: format_2573 SAM + output: ??? Bowtie alignment report format + +topic: topic_0622 Genomics +function: operation_3212 Genome indexing (Burrows-Wheeler) +function: operation_0292 Sequence alignment generation +input: data_2975 Nucleic acid sequence (raw) +input: format_1929 FASTA +input: format_1930 FASTQ +output: data_1383 Sequence alignment (nucleic acid) +output: format_2573 SAM Modified: trunk/packages/bowtie/trunk/debian/upstream/metadata =================================================================== --- trunk/packages/bowtie/trunk/debian/upstream/metadata 2014-11-21 07:10:14 UTC (rev 18503) +++ trunk/packages/bowtie/trunk/debian/upstream/metadata 2014-11-21 08:38:57 UTC (rev 18504) @@ -1,5 +1,5 @@ Reference: - author: Ben Langmead and Cole Trapnell and Mihai Pop and Steven L Salzberg + author: Ben Langmead and Cole Trapnell and Mihai Pop and Steven L Salzberg title: Ultrafast and memory-efficient alignment of short DNA sequences to the human genome journal: Genome Biology volume: 10 _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
