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Add bioconductor-scp #6507

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Add bioconductor-scp #6507

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ccb11eb
start scp
nilchia Nov 2, 2024
8140cd1
Update tools/scp/scp.xml
nilchia Nov 2, 2024
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13 changes: 13 additions & 0 deletions tools/scp/.shed.yml
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name: scp
owner: iuc
description: Mass Spectrometry-Based Single-Cell Proteomics Data Analysis
homepage_url: https://github.com/UCLouvain-CBIO/scp
long_description: The scp package is used to process and analyse mass spectrometry-based single cell proteomics data. It relies on the "QFeatures" package to manage and process "SingleCellExperiment" objects.
remote_repository_url: https://github.com/galaxyproject/tools-iuc/tree/master/tools/scp
categories:
- Single Cell
- Proteomics
suite:
name: "suite_scp"
description: "A suite of Galaxy tools designed to work with the scp-tools collection."
type: repository_suite_definition
27 changes: 27 additions & 0 deletions tools/scp/macros.xml
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<macros>
<token name="@TOOL_VERSION@">1.16.0</token>
<token name="@VERSION_SUFFIX@">0</token>
<token name="@PROFILE@">23.0</token>
<xml name="requirements">
<requirements>
<requirement type="package" version="@TOOL_VERSION@">bioconductor-scp</requirement>
<yield/>
</requirements>
</xml>
<xml name="edam">
<edam_topics>
<edam_topic>topic_4019</edam_topic>
<edam_topic>topic_0121</edam_topic>
<edam_topic>topic_3520</edam_topic>
</edam_topics>
</xml>
<xml name="citations">
<citations>
<citation type="doi">10.1021/acs.jproteome.3c00227</citation>
<citation type="doi">10.1002/cpz1.658</citation>
<citation type="doi">10.1080/14789450.2021.1988571</citation>
<citation type="doi">10.1101/2023.12.14.571792</citation>
<citation type="doi">10.18129/B9.bioc.scp</citation>
</citations>
</xml>
</macros>
29 changes: 29 additions & 0 deletions tools/scp/scp.xml
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<tool id="bioconductor_scp" name="scp" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
<description>Mass Spectrometry-Based Single-Cell Proteomics Data Analysis</description>
<macros>
<import>macros.xml</import>
</macros>
<expand macro="edam"/>
<expand macro="requirements"/>
<command detect_errors="exit_code"><![CDATA[

]]></command>
<configfiles>
<configfile name="scp_script"><![CDATA[

]]></configfile>
</configfiles>
<inputs>

</inputs>
<outputs>

</outputs>
<tests>

</tests>
<help><![CDATA[

]]></help>
<expand macro="citations" />
</tool>
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