Repository revision
3:5667ff6f7a40

Repository 'msstatstmt'
hg clone https://toolshed.g2.bx.psu.edu/repos/galaxyp/msstatstmt

MSstatsTMT tool metadata
Miscellaneous
MSstatsTMT
protein significance analysis in shotgun mass spectrometry-based proteomic experiments with tandem mass tag (TMT) labeling
msstatstmt
toolshed.g2.bx.psu.edu/repos/galaxyp/msstatstmt/msstatstmt/1.8.2+galaxy1
1.8.2+galaxy1
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/galaxyp/msstatstmt/msstatstmt/2.0.0+galaxy0
toolshed.g2.bx.psu.edu/repos/galaxyp/msstatstmt/msstatstmt/1.8.2+galaxy1 (this tool)
toolshed.g2.bx.psu.edu/repos/galaxyp/msstatstmt/msstatstmt/1.8.0+galaxy0
msstatstmt
Requirements (dependencies defined in the <requirements> tag set)
name version type
bioconductor-msstatstmt 1.8.2 package
Functional tests
name inputs outputs required files
Test-1 input|msstatstmt_input: input.msstatstmt.txt
input|input_src: MSstatsTMT
selected_outputs: ['msstats_log', 'msstatstmt_log', 'r_script', 'ProfilePlot', 'QCPlot']
name: value
name: value
name: value
name: value
name: value
input.msstatstmt.txt
value
Test-2 input|evidence: evidence.txt
input|proteinGroups: proteinGroups.txt
input|annotation: annotation.txt
input|input_src: MaxQuant
out_plots_opt|which_Protein|protein_list: proteinIDs.txt
out_plots_opt|which_Protein|select: list
group|use_comp_matrix|comparison_matrix: comparison_matrix.txt
group|use_comp_matrix|select: true
group|selected_group_outputs: ['comparison_result', 'VolcanoPlot', 'ComparisonPlot']
group|group_comparison: true
selected_outputs: ProfilePlot
name: value
name: value
name: value
name: value
evidence.txt
proteinGroups.txt
annotation.txt
proteinIDs.txt
comparison_matrix.txt
value
Test-3 input|oms_input: input.oms.txt
input|input_src: OpenMS
group|selected_group_outputs: ['comparison_result', 'Heatmap']
group|group_comparison: true
selected_outputs: r_script
name: value
name: value
name: value
input.oms.txt
value
Test-4 input|PSM: input.pd.txt
input|annotation: annotation.pd.txt
input|input_src: PD
selected_outputs: quant
name: value
input.pd.txt
annotation.pd.txt
value
Test-5 input|evidence: evidence.txt
input|proteinGroups: proteinGroups.txt
input|annotation: annotation.txt
input|input_src: MaxQuant
out_plots_opt|which_Protein|select: allonly
selected_outputs: ProfilePlot
name: value
evidence.txt
proteinGroups.txt
annotation.txt
value