Description

Build ganon database using custom reference sequences.

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

input (file)

List of input FASTA files, or a directory containing input FASTA files.
Note you must supply —input-extension via ext.args if FASTA extensions do not end in the default fna.gz.

*

taxonomy_files (file)

Pre-downloaded taxonomy files of input sequences. See ganon docs for formats

genome_size_files (file)

Pre-downloaded NCBI or GTDB genome size files of input sequences. See ganon docs for formats

{species_genome_size.txt.gz,*_metadata.tar.gz}

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

versions (file)

File containing software versions

versions.yml

db (file)

ganon database files

*.{ibf,tax}

info (file)

Copy of target info generated. Can be used for updating database.

*info.tsv
author
Github user jfy133
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Tools

ganon
MIT License

ganon classifies short DNA sequences against large sets of genomic reference sequences efficiently

github.com/pirovc/ganon 10.1093/bioinformatics/btaa458