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
A space managed by WorkflowHub administrators for teams that don't want/need to manage their own space.
Teams: IBISBA Workflows, NMR Workflow, UNLOCK, NanoGalaxy, Galaxy Climate, PNDB, IMBforge, COVID-19 PubSeq: Public SARS-CoV-2 Sequence Resource, LBI-RUD, Nick-test-team, usegalaxy-eu, Italy-Covid-data-Portal, UX trial team, Integrated and Urban Plant Pathology Laboratory, SARS-CoV-2 Data Hubs, lmjxteam2, Australian BioCommons, virAnnot pipeline, Ay Lab
Web page: Not specified
An open infrastructure for exploring new horizons for research on microbial communities.
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
Workflow for read quality control and trimming.
Steps:
FastQC (read quality control)
fastp (read quality trimming)
bbduk used for rrna filtering
Amplicon analysis workflow using NG-Tax
Type: Common Workflow Language
Creators: Jasper Koehorst, Jesse van Dam, Bart Nijsse, Peter Schaap,
Submitter: Jasper Koehorst
