Description

msisensor2 detection of MSI regions.

Input

Name (Type)
Description
Pattern

fasta (file)

Path to reference genome.

*.fasta

output (val)

Name of output MSI scan to write.

Output

Name (Type)
Description
Pattern

versions (file)

File containing software versions

versions.yml

output (file)

Output scan of MSI regions in FASTA file.

*
maintainer
Github user adamrtalbot
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Tools

msisensor2
GPL-3.0

MSIsensor2 is a novel algorithm based machine learning, featuring a large upgrade in the microsatellite instability (MSI) detection for tumor only sequencing data, including Cell-Free DNA (cfDNA), Formalin-Fixed Paraffin-Embedded(FFPE) and other sample types. The original MSIsensor is specially designed for tumor/normal paired sequencing data.

github.com/niu-lab/msisensor2 github.com/niu-lab/msisensor2/blob/master/README.md https://github.com/niu-lab/msisensor2