1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/52ce5e6950b7/ changeset: 52ce5e6950b7 user: dan date: 2011-11-21 22:55:16 summary: Update help for some SAMTools. affected #: 5 files diff -r 945c7a47755f4c468d0742ad02d43647a300565c -r 52ce5e6950b7e599b6da104ca5b094df00ea4d26 tools/samtools/bam_to_sam.xml --- a/tools/samtools/bam_to_sam.xml +++ b/tools/samtools/bam_to_sam.xml @@ -56,5 +56,11 @@ .. _SAMTools: http://samtools.sourceforge.net/samtools.shtml +------ + +**Citation** + +For the underlying tool, please cite `Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R; 1000 Genome Project Data Processing Subgroup. The Sequence Alignment/Map format and SAMtools. Bioinformatics. 2009 Aug 15;25(16):2078-9. <http://www.ncbi.nlm.nih.gov/pubmed/19505943>`_ + </help></tool> diff -r 945c7a47755f4c468d0742ad02d43647a300565c -r 52ce5e6950b7e599b6da104ca5b094df00ea4d26 tools/samtools/sam_pileup.xml --- a/tools/samtools/sam_pileup.xml +++ b/tools/samtools/sam_pileup.xml @@ -177,6 +177,12 @@ .. _consensus: http://samtools.sourceforge.net/cns0.shtml +------ + +**Citation** + +For the underlying tool, please cite `Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R; 1000 Genome Project Data Processing Subgroup. The Sequence Alignment/Map format and SAMtools. Bioinformatics. 2009 Aug 15;25(16):2078-9. <http://www.ncbi.nlm.nih.gov/pubmed/19505943>`_ + </help></tool> diff -r 945c7a47755f4c468d0742ad02d43647a300565c -r 52ce5e6950b7e599b6da104ca5b094df00ea4d26 tools/samtools/sam_to_bam.xml --- a/tools/samtools/sam_to_bam.xml +++ b/tools/samtools/sam_to_bam.xml @@ -87,5 +87,11 @@ .. _SAMTools: http://samtools.sourceforge.net/samtools.shtml +------ + +**Citation** + +For the underlying tool, please cite `Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R; 1000 Genome Project Data Processing Subgroup. The Sequence Alignment/Map format and SAMtools. Bioinformatics. 2009 Aug 15;25(16):2078-9. <http://www.ncbi.nlm.nih.gov/pubmed/19505943>`_ + </help></tool> diff -r 945c7a47755f4c468d0742ad02d43647a300565c -r 52ce5e6950b7e599b6da104ca5b094df00ea4d26 tools/samtools/samtools_flagstat.xml --- a/tools/samtools/samtools_flagstat.xml +++ b/tools/samtools/samtools_flagstat.xml @@ -25,5 +25,13 @@ .. _SAMTools: http://samtools.sourceforge.net/samtools.shtml +------ + +**Citation** + +For the underlying tool, please cite `Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R; 1000 Genome Project Data Processing Subgroup. The Sequence Alignment/Map format and SAMtools. Bioinformatics. 2009 Aug 15;25(16):2078-9. <http://www.ncbi.nlm.nih.gov/pubmed/19505943>`_ + +If you use this tool in Galaxy, please cite Blankenberg D, et al. *In preparation.* + </help></tool> diff -r 945c7a47755f4c468d0742ad02d43647a300565c -r 52ce5e6950b7e599b6da104ca5b094df00ea4d26 tools/samtools/samtools_rmdup.xml --- a/tools/samtools/samtools_rmdup.xml +++ b/tools/samtools/samtools_rmdup.xml @@ -57,5 +57,13 @@ .. _SAMTools: http://samtools.sourceforge.net/samtools.shtml +------ + +**Citation** + +For the underlying tool, please cite `Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R; 1000 Genome Project Data Processing Subgroup. The Sequence Alignment/Map format and SAMtools. Bioinformatics. 2009 Aug 15;25(16):2078-9. <http://www.ncbi.nlm.nih.gov/pubmed/19505943>`_ + +If you use this tool in Galaxy, please cite Blankenberg D, et al. *In preparation.* + </help></tool> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.