comparison fisher_test.xml @ 3:4b76708c6b95 draft default tip

planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/fisher_test commit afc67da70753a5808ade516f71e9bf133efb3268

2:8052d037517f

<tool id="fishertest" name="Fisher's exact test" version="2.22.0+galaxy0">
	<description>on two gene hit lists</description>
        <requirements>
            <requirement type="package" version="2.22.0">bioconductor-qvalue</requirement>
        </requirements>
        <command><![CDATA[
            Rscript '$fisher_test' "\${GALAXY_SLOTS:-1}"
    ]]></command>
  <configfiles>

</tests>
<help>

**What it does**

Runs Fisher's exact test for testing the null of independence of rows and columns in a contingency table of two columns.

p.pvalues: the chance of getting this data if it is independent between columns (false negative); the p-value.

q.qvalues: FDR (Faslse Detection Rate) adjusted p-values; a q-value of 0.05 implies that 5% of significant tests will result in false positives.

Be aware that this test does not take into account the biological noise that would be visible if replicates were available.


</help>
<citations>
    <citation type="doi">10.1111/1467-9868.00346</citation>

3:4b76708c6b95

<tool id="fishertest" name="Fisher's exact test" version="2.32.0+galaxy0">
	<description>on two gene hit lists</description>
        <requirements>
            <requirement type="package" version="2.32.0">bioconductor-qvalue</requirement>
        </requirements>
        <command><![CDATA[
            Rscript '$fisher_test' "\${GALAXY_SLOTS:-1}"
    ]]></command>
  <configfiles>

</tests>
<help>

**What it does**

Runs Fisher's exact test for testing the null of independence of rows and columns
in a contingency table of two columns.

p.pvalues: the chance of getting this data if it is independent between columns
(false negative); the p-value.

q.qvalues: FDR (Faslse Detection Rate) adjusted p-values;
a q-value of 0.05 implies that 5% of significant tests will result in false positives.

Be aware that this test does not take into account the biological noise
that would be visible if replicates were available.


</help>
<citations>
    <citation type="doi">10.1111/1467-9868.00346</citation>