Jasper Koehorst
SEEK ID: https://workflowhub.eu/people/46
Location:
Netherlands
Expertise: Not specified
Tools: Not specified
https://orcid.org/0000-0001-8172-8981 
Team roles
Project administrator
Their tagsRelated items
An open infrastructure for exploring new horizons for research on microbial communities.
Work-in-progress
Workflow for Metagenomics from raw reads to annotated bins.
Steps:
workflow_quality.cwl:
FastQC (control)
fastp (trimming)
Kraken2 (Taxonomic Read Classification
SPAdes (Assembly)
QUAST (Assembly quality report)
BBmap (Read mapping to assembly)
samtobam (sam to indexed bam)
metabatContigDepths (jgisummarizebamcontigdepths)
MetaBat2 (binning)
Download
Work-in-progress
Workflow for read quality control and trimming.
Steps:
FastQC (read quality control)
fastp (read quality trimming)
bbduk used for rrna filtering
Stable
Amplicon analysis workflow using NG-Tax
Type: Common Workflow Language
Creators: Jasper Koehorst, Jesse van Dam, Bart Nijsse, Peter Schaap,
Submitter: Jasper Koehorst
