multiAffinity
Version 1

Workflow Type: Common Workflow Language
Stable

drawing

MultiAffinity enables the study of how gene dysregulation propagates on a multilayer network on a disease of interest, uncovering key genes. Find the detailed documentation for the tool here.

alt

Click and drag the diagram to pan, double click or use the controls to zoom.

Inputs

ID Name Description Type
counts n/a Count Matrices of the RNA-Seq studies - List of input CSV files, separated by commas
  • File[]
metadata n/a Metadata of the RNA-Seq studies - List of input CSV files, separated by commas
  • File[]
layers n/a Layers of the multilayer networks - List of input CSV files, separated by commas
  • File[]?
approach n/a Computes correlation on each community or respect all genes, local or global approach (default is local)
  • string?
output_dir n/a Defines name for output folder
  • string?
padj n/a Sets significance value for DESeq2, RRA, and Spearman's Corr (default is 0.05)
  • string?
LFC n/a Defines whether self loops are removed or not, takes values 0 or 1 (default is 1)
  • string?
control_id n/a Defines metadata label for the control samples (default is Normal)
  • string?
multiXrank_r n/a Global restart probability for multiXrank, given by float between 0 and 1 (default is 0.15)
  • string?
multiXrank_selfloops n/a Defines whether self loops are removed or not, takes values 0 or 1 (default is 1)
  • int?
Molti_modularity n/a Sets Newman modularity resolution parameter on molTI-DREAM (default is 1)
  • int?
Molti_Louvain n/a Switches to randomized Louvain on molTI-DREAM and sets num. of randomizations (default is 5)
  • int?
min_nodes n/a Defines minimum number of nodes required to describe a community (default is 7)
  • int?

Steps

ID Name Description
tool n/a n/a

Outputs

ID Name Description Type
output n/a Contains degs, communities and affinity information
  • Directory

Version History

Version 1 (earliest) Created 14th Dec 2021 at 10:01 by Laura Rodriguez-Navas

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Frozen Version-1 581e04b
help Creators and Submitter
Creator
Additional credit

Mar Batlle

Submitter
Activity

Views: 1217   Downloads: 147

Created: 14th Dec 2021 at 10:01

Last updated: 21st Apr 2023 at 12:06

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