annotate scater_macros.xml @ 0:add247843ef0 draft default tip

planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 9bf9a6e46a330890be932f60d1d996dd166426c4

<macros>
  <token name="@TOOL_VERSION@">1.8.4</token>
  <token name="@HELP@">More information can be found at https://bioconductor.org/packages/release/bioc/html/scater.html</token>
  <xml name="requirements">
    <requirements>
      <requirement type="package" version="0.0.4">bioconductor-scater-scripts</requirement>
      <yield/>
    </requirements>
  </xml>
  <xml name="version">
    <version_command><![CDATA[
    echo $(R --version | grep version | grep -v GNU)", scater version" $(R --vanilla --slave -e "library(scater); cat(sessionInfo()\$otherPkgs\$scater\$Version)" 2> /dev/null | grep -v -i "WARNING: ")
    ]]></version_command>
  </xml>
  <token name="@VERSION_HISTORY@"><![CDATA[
**Version history**

1.8.4+galaxy0: Initial contribution. Suhaib Mohammed, Ni Huang and Pablo Moreno, Expression Atlas team https://www.ebi.ac.uk/gxa/home  at
EMBL-EBI https://www.ebi.ac.uk/ and and Teichmann Lab at Wellcome Sanger Institute.
    ]]></token>
  <xml name="citations">
    <citations>
      <citation type="bibtex">
        @article{doi:10.1093/bioinformatics/btw777,
        author = {McCarthy, Davis J and Campbell, Kieran R and Lun, Aaron T L and Wills, Quin F},
        title = {Scater: pre-processing, quality control, normalization and visualization of single-cell RNA-seq data in R},
        journal = {Bioinformatics},
        volume = {33},
        number = {8},
        pages = {1179-1186},
        year = {2017},
        doi = {10.1093/bioinformatics/btw777},
        URL = {http://dx.doi.org/10.1093/bioinformatics/btw777},
        eprint = {/oup/backfile/content_public/journal/bioinformatics/33/8/10.1093_bioinformatics_btw777/2/btw777.pdf}
        }
      </citation>
      <citation type="bibtex">
        @misc{githubbioconductor-scater-scripts.git,
        author = {Jonathan Manning, Ni Huang, Suhaib Mohammed, EBI Gene Expression Team},
        year = {2018},
        title = {Scater-scripts: command line interface for Scater},
        publisher = {GitHub},
        journal = {GitHub repository},
        url = {https://github.com/ebi-gene-expression-group/bioconductor-scater-scripts.git},
      }
      </citation>
      <yield />
    </citations>
  </xml>
</macros>