srst2

Short Read Sequence Typing for Bacterial Pathogens

Command lineScience

Not tested on a device yet. What that means

Commands in the package

srst2
VFDB_cdhit_to_csv
VFDBgenus
csv_to_gene_db
get_all_vfdb
get_genus_vfdb
getmlst

About srst2

From Debian's package description

This program is designed to take Illumina sequence data, a MLST database and/or a database of gene sequences (e.g. resistance genes, virulence genes, etc) and report the presence of STs and/or reference genes.

From Debian's description of the srst2 package, under that package's license.

Dependencies

Depends on

python3
bowtie2
cd-hit
samtools
python3-scipy
python3-biopython

Recommends

python3-rpy2

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Sources and licenses

Name: the Debian package name.
Summary: Debian's short description of the srst2 package, under that package's license.
Description: Debian's description of the srst2 package, under that package's license.
Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
Popularity: Debian Popularity Contest counts.