annotate scpred_macros.xml @ 4:ea0aafb02362 draft

"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit bb88d0eb9c193518eb0d05321e3458a10212d3ab"

<macros>
    <token name="@TOOL_VERSION@">1.0.0</token>
    <token name="@HELP@">More information can be found at https://joseah.github.io/post/introduction-to-scpred/</token>
    <token name="@PROFILE@">18.01</token>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="0.0.9">scpred-cli</requirement>
                <yield/>
        </requirements>
    </xml>
    <xml name="version">
        <version_command><![CDATA[
            echo $(R --version | grep version | grep -v GNU)",  scpred version" $(R --vanilla --slave -e "library(scpred); cat(sessionInfo()\$otherPkgs\$scpred\$Version)" 2> /dev/null | grep -v -i "WARNING: ")
            ]]></version_command>
    </xml>
    <token name="@VERSION_HISTORY@"><![CDATA[
        **Version history**
        1.0.1+galaxy0: Update output format from csv to tsv
        1.0.0+galaxy0: Initilal contribution. Andrey Solovyev, Expression Atlas team https://www.ebi.ac.uk/gxa/home at EMBL-EBI https://www.ebi.ac.uk/.
        ]]></token>
    <xml name="citations">
        <citations>
            <citation type="bibtex">
                @article{Alquicira-Hernandez2019,
                author = {Alquicira-Hernandez, Jose and Sathe, Anuja and Ji, Hanlee P and Nguyen, Quan and Powell, Joseph E},
                journal = {Genome Biology},
                title = {{scPred: accurate supervised method for cell-type classification from single-cell RNA-seq data}},
                url = {https://doi.org/10.1186/s13059-019-1862-5},
                year = {2019}
                }
            </citation>
            <citation type="bibtex">
                @misc{githubscpred-cli.git,
                author = {Andrey Solovyev, EBI Gene Expression Team},
                year = {2019},
                title = {scpred-cli: command line interface for ScPred tool},
                publisher = {GitHub},
                journal = {GitHub repository},
                url = {https://github.com/ebi-gene-expression-group/scpred-cli.git},
              }
            </citation>
            <citation type="doi">10.1101/2020.04.08.032698</citation>
            <yield />
        </citations>
    </xml>
</macros>