Workflows

What is a Workflow?
4 Workflows visible to you, out of a total of 4
Stable

A CWL-based pipeline for calling small germline variants, namely SNPs and small INDELs, by processing data from Whole-genome Sequencing (WGS) or Targeted Sequencing (e.g., Whole-exome sequencing; WES) experiments.

On the respective GitHub folder are available:

  • The CWL wrappers and subworkflows for the workflow
  • A pre-configured YAML template, based on validation analysis of publicly available HTS data

Briefly, the workflow performs the following steps:

  1. Quality control of Illumina reads ...
Stable

A CWL-based pipeline for calling small germline variants, namely SNPs and small INDELs, by processing data from Whole-genome Sequencing (WGS) or Targeted Sequencing (e.g., Whole-exome sequencing; WES) experiments.

On the respective GitHub folder are available:

  • The CWL wrappers and subworkflows for the workflow
  • A pre-configured YAML template, based on validation analysis of publicly available HTS data

Briefly, the workflow performs the following steps:

  1. Quality control of Illumina reads ...
Stable

A CWL-based pipeline for processing ChIP-Seq data (FASTQ format) and performing:

  • Peak calling
  • Consensus peak count table generation
  • Detection of super-enhancer regions
  • Differential binding analysis

On the respective GitHub folder are available:

  • The CWL wrappers for the workflow
  • A pre-configured YAML template, based on validation analysis of publicly available HTS data
  • Tables of metadata (EZH2_metadata_CLL.csv and H3K27me3_metadata_CLL.csv), based on the same validation ...
Stable

A CWL-based pipeline for processing RNA-Seq data (FASTQ format) and performing differential gene/transcript expression analysis.

On the respective GitHub folder are available:

  • The CWL wrappers for the workflow
  • A pre-configured YAML template, based on validation analysis of publicly available HTS data
  • A table of metadata (mrna_cll_subsets_phenotypes.csv), based on the same validation analysis, to serve as an input example for the design of comparisons during differential expression ...
Powered by
(v.1.16.0-main)
Copyright © 2008 - 2024 The University of Manchester and HITS gGmbH