Workflows
What is a Workflow?Filters
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)
Precision HLA typing from next-generation sequencing data using OptiType.
Table of Contents
Introduction Quick Start
With Docker With Singularity
Documentation Pipeline DAG
Input fastq Input bam
Credits
Introduction
OptiType is a HLA genotyping algorithm based on integer linear programming. Reads of whole exome/genome/transcriptome sequencing data are mapped against a reference of known MHC class I alleles. To produce accurate 4-digit HLA genotyping predictions, all major and minor HLA-I loci are ...