Workflows
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Introduction
nfcore/chipseq is a bioinformatics analysis pipeline used for Chromatin ImmunopreciPitation sequencing (ChIP-seq) data.
The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It comes with docker containers making installation trivial and results highly reproducible.
Pipeline summary
Raw read QC (FastQC) Adapter trimming (Trim Galore!) Alignment (BWA) Mark duplicates (picard) Merge alignments from multiple ...
Identifies non-coding RNAs using Rfams covariance models
Chunked version of phmmer-v3.2.cwl
Transcriptome assembly workflow (paired-end version)
Transcriptome assembly workflow (single-end version)
Transcripts annotation workflow
Type: Common Workflow Language
Creator: Arnaud Meng, Maxim Scheremetjew, Michael Crusoe
Submitter: Finn Bacall
TransDecoder 2 step workflow, running TransDecoder.LongOrfs (step 1) followed by TransDecoder.Predict (step2)