abundance_differential_filter

A community effort to collect a curated set of open-source analysis pipelines built using Nextflow.

https://github.com/nf-core/modules/[...]/subworkflows/nf-core/abundance_differential_filter

Description

Input

name:type

description

pattern

`ch_input`

Channel with input data for differential analysis

`ch_samplesheet`

Channel with sample information

`ch_transcript_lengths`

Channel with transcript length information

`ch_control_features`

Channel with control features information

`ch_contrasts`

Channel with contrast information

Output

name:type

description

pattern

`versions`

Channel containing software versions file

`results_genewise`

Channel containing unfiltered differential analysis results

`results_genewise_filtered`

Channel containing filtered differential analysis results

`adjacency`

Channel containing the adjacency matrix suited for downstream graph-based functional analysis

`normalised_matrix`

Channel containing normalised count matrix

`variance_stabilised_matrix`

Channel containing variance stabilised count matrix (DESeq2 only)

`model`

Channel containing statistical model object from differential analysis