| Previous changeset 4:016c39d243fb (2020-05-14) |
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Commit message:
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit b28c91675a0a90e45c65f275fc2fd596b431aa45" |
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modified:
monocle3-macros.xml monocle3-plotCells.xml |
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| diff -r 016c39d243fb -r 91980addce5e monocle3-macros.xml --- a/monocle3-macros.xml Thu May 14 17:30:05 2020 -0400 +++ b/monocle3-macros.xml Wed Jun 03 14:57:57 2020 -0400 |
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| @@ -4,6 +4,8 @@ <token name="@HELP@">More information can be found at https://cole-trapnell-lab.github.io/monocle3/ and https://github.com/ebi-gene-expression-group/monocle-scripts</token> <token name="@VERSION_HISTORY@"><![CDATA[ **Version history** +0.1.5+galaxy1: Updated to monocle3-cli 0.0.9 for plot cells to allow for multiple genes plotting. + 0.1.5+galaxy0: Updated to monocle3-cli 0.0.8 to add top marker genes and fix container plots for plotCells (only those two modules upgraded). 0.1.4+galaxy0: Updated to monocle3-cli 0.0.7 to fix bug with column headers in tsv. |
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| diff -r 016c39d243fb -r 91980addce5e monocle3-plotCells.xml --- a/monocle3-plotCells.xml Thu May 14 17:30:05 2020 -0400 +++ b/monocle3-plotCells.xml Wed Jun 03 14:57:57 2020 -0400 |
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| @@ -1,11 +1,11 @@ <?xml version="1.0" encoding="utf-8"?> -<tool id="monocle3_plotCells" name="Monocle3 plotCells" version="0.1.5+galaxy0" profile="@PROFILE@"> +<tool id="monocle3_plotCells" name="Monocle3 plotCells" version="0.1.5+galaxy1" profile="@PROFILE@"> <description> in the reduced dimensionality space</description> <macros> <import>monocle3-macros.xml</import> </macros> <requirements> - <requirement type="package" version="0.0.8">monocle3-cli</requirement> + <requirement type="package" version="0.0.9">monocle3-cli</requirement> </requirements> <command detect_errors="exit_code"><![CDATA[ LANG=en_US.UTF-8 monocle3 plotCells @@ -65,7 +65,7 @@ <option value="LSI">LSI</option> </param> <param name="color_cells_by" argument="--color-cells-by" optional="true" type="text" value="pseudotime" label="The cell attribute (e.g. the column of pData(cds)) to map to each cell's color, or one of {cluster, partition, pseudotime}."/> - <param name="genes" argument="--genes" optional="true" type="text" label="A list of gene IDs/short names to plot, one per panel."/> + <param name="genes" argument="--genes" optional="true" type="text" label="A list of gene IDs/short names to plot." help="For adding more than one gene, write them as a comma separated list, with no spaces in the middle, like `crp1,crp2,cycX`."/> <param name="norm_method" argument="--norm-method" type="select" label="Determines how to transform expression values for plotting."> <option value="log" selected="true">Size factor correction and log transformation</option> <option value="size_only">Size factor correction only</option> |