Mercurial > repos > artbio > gsc_high_dimensions_visualisation
comparison high_dim_visu.xml @ 2:7e7a2a4cfce2 draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/gsc_high_dimension_visualization commit e15ae06208ef1d3d42c0576ed28eb6ba10a36671
| author | artbio |
|---|---|
| date | Tue, 25 Jun 2019 16:20:27 -0400 |
| parents | c756ab726a85 |
| children | 8e44c9e18a56 |
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| 1:c756ab726a85 | 2:7e7a2a4cfce2 |
|---|---|
| 1 <tool id="high_dimensions_visualisation" name="Generate PCA, tSNE and HCPC" version="0.9.1"> | 1 <tool id="high_dimensions_visualisation" name="Generate PCA, tSNE and HCPC" version="0.9.2"> |
| 2 <description>from highly dimensional expression data</description> | 2 <description>from highly dimensional expression data</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="1.3.2=r3.3.2_0">r-optparse</requirement> | 4 <requirement type="package" version="1.3.2=r3.3.2_0">r-optparse</requirement> |
| 5 <requirement type="package" version="1.39=r3.3.2_0">r-factominer</requirement> | 5 <requirement type="package" version="1.39=r3.3.2_0">r-factominer</requirement> |
| 6 <requirement type="package" version="1.0.5=r3.3.2_0">r-factoextra</requirement> | 6 <requirement type="package" version="1.0.5=r3.3.2_0">r-factoextra</requirement> |
| 203 <param name="labels" value="no" /> | 203 <param name="labels" value="no" /> |
| 204 <param name="visu_choice" value="PCA" /> | 204 <param name="visu_choice" value="PCA" /> |
| 205 <param name="factor_choice" value="Yes" /> | 205 <param name="factor_choice" value="Yes" /> |
| 206 <param name="factor" value="factor.tsv" ftype="txt"/> | 206 <param name="factor" value="factor.tsv" ftype="txt"/> |
| 207 <output name="pdf_out" file="pca.nolabels.factors.pdf" ftype="pdf"/> | 207 <output name="pdf_out" file="pca.nolabels.factors.pdf" ftype="pdf"/> |
| 208 </test> | |
| 209 <!-- test two-level factor contrasting on PCA --> | |
| 210 <test> | |
| 211 <param name="input" value="cpm_input.tsv" ftype="txt"/> | |
| 212 <param name="labels" value="no" /> | |
| 213 <param name="visu_choice" value="PCA" /> | |
| 214 <param name="factor_choice" value="Yes" /> | |
| 215 <param name="factor" value="2-lev_factor.tsv" ftype="txt"/> | |
| 216 <output name="pdf_out" file="pca.nolabels.2-lev-factor.pdf" ftype="pdf"/> | |
| 208 </test> | 217 </test> |
| 209 <test> | 218 <test> |
| 210 <param name="input" value="cpm_input.tsv" ftype="txt"/> | 219 <param name="input" value="cpm_input.tsv" ftype="txt"/> |
| 211 <param name="labels" value="no" /> | 220 <param name="labels" value="no" /> |
| 212 <param name="visu_choice" value="PCA" /> | 221 <param name="visu_choice" value="PCA" /> |