annotate sc3-calc-dists.xml @ 0:d005fe979d80 draft default tip

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

<?xml version="1.0" encoding="utf-8"?>
<tool id="sc3_calc_dists" name="SC3 Calculate Distances" version="@TOOL_VERSION@+galaxy0">
  <description>between cells</description>
  <macros>
    <import>sc3-macros.xml</import>
  </macros>
  <expand macro="requirements" />
  <command detect_errors="exit_code"><![CDATA[
sc3-sc3-calc-dists.R -i '${sc3_prepared}' -o '${sc3_distances}'
  ]]></command>

  <inputs>
    <param name="sc3_prepared" type="data" format="rdata" label="Serialised sc3 SingleCellExperiment object"/>
  </inputs>

  <outputs>
    <data name="sc3_distances" format="rdata" label="${tool.name} on ${on_string}: serialised sc3 SingleCellExperiment with calculated distances"/>
  </outputs>

  <tests>
    <test>
      <param name="sc3_prepared" value="sc3_prepared.rdata"/>
      <output name="sc3_distances" file="sc3_distances.rdata"/>
    </test>
  </tests>

  <help><![CDATA[
=====================================================
This function calculates distances between the cells.
=====================================================

It creates and populates the following items of the sc3 slot of the metadata(object):
- distances: contains a list of distance matrices corresponding to Euclidean, Pearson and Spearman distances.

@HELP@

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