| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.18 (this tool) |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.17 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.16 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.15 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.14 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.13 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.12 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.11 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.10 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.8 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.7 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.6 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.5 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.3 |
| toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.2 |
| w4mcorcov |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| r-base | not provided | package |
| r-batch | not provided | package |
| bioconductor-ropls | 1.22.0 | package |
| Additional information about this tool |
Rscript '$__tool_directory__/w4mcorcov_wrapper.R'
dataMatrix_in '$dataMatrix_in'
sampleMetadata_in '$sampleMetadata_in'
variableMetadata_in '$variableMetadata_in'
facC '$facC'
#if str( $signif_test.tesC ) == 'none':
tesC 'none'
pairSigFeatOnly 'FALSE'
#else:
tesC '$signif_test.tesC'
pairSigFeatOnly '$signif_test.pairSigFeatOnly'
#end if
levCSV '$levCSV'
matchingC '$matchingC'
labelFeatures '$labelFeatures'
#if str( $advanced.advancedFeatures ) == 'none':
fdr_features 'ALL'
cplot_p 'FALSE'
cplot_o 'FALSE'
cplot_y 'correlation'
#else if str( $advanced.advancedFeatures ) == 'advanced':
fdr_features '$advanced.fdr_features'
cplot_p '$advanced.cplot_p'
cplot_o '$advanced.cplot_o'
cplot_y '$advanced.cplot_y'
#end if
contrast_detail '$contrast_detail'
contrast_corcov '$contrast_corcov'
contrast_salience '$contrast_salience'
min_crossval_i '$min_crossval_i'
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
dataMatrix_in: issue14_input_dataMatrix.tsv sampleMetadata_in: issue14_input_sampleMetadata.tsv variableMetadata_in: issue14_input_variableMetadata.tsv facC: tissue_flowering signif_test|tesC: none levCSV: * matchingC: wildcard labelFeatures: 3 min_crossval_i: 4 advanced|fdr_features: ALL |
name: value |
issue14_input_dataMatrix.tsv issue14_input_sampleMetadata.tsv issue14_input_variableMetadata.tsv value |
| Test-2 |
dataMatrix_in: input_dataMatrix.tsv sampleMetadata_in: issue6_input_sampleMetadata.tsv variableMetadata_in: input_variableMetadata.tsv facC: k._10 signif_test|tesC: none levCSV: k_3,k-4 matchingC: none labelFeatures: 3 min_crossval_i: 7 advanced|fdr_features: ALL |
name: value |
input_dataMatrix.tsv issue6_input_sampleMetadata.tsv input_variableMetadata.tsv value |
| Test-3 |
dataMatrix_in: input_dataMatrix.tsv sampleMetadata_in: issue8_input_sampleMetadata.tsv variableMetadata_in: input_variableMetadata.tsv facC: k._10 signif_test|tesC: none levCSV: k_3,k-4 matchingC: none labelFeatures: 3 min_crossval_i: 7 advanced|fdr_features: ALL |
name: value |
input_dataMatrix.tsv issue8_input_sampleMetadata.tsv input_variableMetadata.tsv value |
| Test-4 |
dataMatrix_in: input_dataMatrix.tsv sampleMetadata_in: input_sampleMetadata.tsv variableMetadata_in: input_variableMetadata.tsv facC: k10 signif_test|pairSigFeatOnly: False signif_test|tesC: kruskal levCSV: k[12],k[3-4] matchingC: regex labelFeatures: 3 min_crossval_i: 7 advanced|fdr_features: 250 |
name: value name: value |
input_dataMatrix.tsv input_sampleMetadata.tsv input_variableMetadata.tsv value |
| Test-5 |
dataMatrix_in: input_dataMatrix.tsv sampleMetadata_in: input_sampleMetadata.tsv variableMetadata_in: input_variableMetadata.tsv facC: k10 signif_test|pairSigFeatOnly: True signif_test|tesC: kruskal levCSV: k[12],k[3-4] matchingC: regex labelFeatures: 3 min_crossval_i: 7 advanced|fdr_features: ALL |
name: value name: value |
input_dataMatrix.tsv input_sampleMetadata.tsv input_variableMetadata.tsv value |
| Test-6 |
dataMatrix_in: input_dataMatrix.tsv sampleMetadata_in: input_sampleMetadata.tsv variableMetadata_in: input_variableMetadata.tsv facC: k10 signif_test|tesC: none levCSV: k[12],k[3-4] matchingC: regex labelFeatures: 3 min_crossval_i: 7 advanced|fdr_features: ALL |
name: value name: value |
input_dataMatrix.tsv input_sampleMetadata.tsv input_variableMetadata.tsv value |
| Test-7 |
dataMatrix_in: issue1_input_dataMatrix.tsv sampleMetadata_in: issue1_input_sampleMetadata.tsv variableMetadata_in: issue1_input_variableMetadata.tsv facC: tissue_flowering signif_test|tesC: none levCSV: * matchingC: wildcard labelFeatures: 3 min_crossval_i: 7 advanced|fdr_features: ALL |
name: value name: value |
issue1_input_dataMatrix.tsv issue1_input_sampleMetadata.tsv issue1_input_variableMetadata.tsv value |
| Test-8 |
dataMatrix_in: input_dataMatrix.tsv sampleMetadata_in: issue6_input_sampleMetadata.tsv variableMetadata_in: input_variableMetadata.tsv facC: k._10 signif_test|tesC: none levCSV: k1,k.2 matchingC: none labelFeatures: 3 min_crossval_i: 7 advanced|fdr_features: ALL |
name: value |
input_dataMatrix.tsv issue6_input_sampleMetadata.tsv input_variableMetadata.tsv value |