Description

NCBI tool for detecting vector contamination in nucleic acid sequences. This tool is older than NCBI’s FCS-adaptor, which is for the same purpose

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, taxid:‘6973’ ]

fasta_file (file)

FASTA file that will be screened for contaminants

adapters_database_file (file)

Path to a nucleotide BLAST database file with vector sequences

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, taxid:‘9606’ ]

versions (file)

File containing software versions

versions.yml

vecscreen_output (file)

VecScreen report file. This can be in different formats depending on the value of the optional -f parameter. 0 = HTML format, with alignments. 1 = HTML format, no alignments. 2 = Text list, with alignments. 3 = Text list, no alignments. default = 0

*.vecscreen.out
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Github user eeaunin
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Tools

ncbitools
The Open Database License

"NCBI libraries for biology applications (text-based utilities)"

ncbi.nlm.nih.gov/tools/vecscreen ncbi.nlm.nih.gov/tools/vecscreen/interpretation https://www.ncbi.nlm.nih.gov/tools/vecscreen/