modules/
fcs_fcsgx

Run FCS-GX on assembled genomes. The contigs of the assembly are searched against a reference database excluding the given taxid.

assembly genomics quality control contamination NCBI

https://github.com/nf-core/modules/tree/master/modules/nf-core/fcs/fcsgx

Description

Run FCS-GX on assembled genomes. The contigs of the assembly are searched against a reference database excluding the given taxid.

Input

Name

Description

Pattern

`0` ()

`1` ()

`0` ()

Output

Name

Description

Pattern

`fcs_gx_report` ()

`taxonomy_report` ()

`versions` ()

Tools

fcs Documentation

"The Foreign Contamination Screening (FCS) tool rapidly detects contaminants from foreign organisms in genome assemblies to prepare your data for submission. Therefore, the submission process to NCBI is faster and fewer contaminated genomes are submitted. This reduces errors in analyses and conclusions, not just for the original data submitter but for all subsequent users of the assembly."

https://github.com/ncbi/fcs