Description

Runs FCS-GX (Foreign Contamination Screen - Genome eXtractor) to screen and remove foreign contamination from genome assemblies

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

gxdb (directory)

Directory containing the FCS-GX database

ramdisk_path (string)

Path to RAM disk for improved performance (optional)

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

0 ()

0 ()

Tools

fcsgx Documentation

The NCBI Foreign Contamination Screen. Genomic cross-species aligner, for contamination detection.

https://github.com/ncbi/fcs-gxdoi: 10.1186/s13059-024-03198-7License: NCBI-PD
nf-core pipelines with this module
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Authors