Main tool: Dr. PRG
Code repository: https://github.com/mbhall88/drprg
Basic information on how to use this tool:
- executable: drprg
- help: --help
- version: --version
- description: Drug Resistance Prediction with Reference Graphs
Additional information:
Imagine contains the mtb@20230308 database located at /drprg/mtb/mtb.
Full documentation: https://mbh.sh/drprg/guide/download.html
Using the index in from the image
# prediction (paired-end fastq files much be contatenated together into one)
drprg predict -x /drprg/mtb/mtb -i input.fastq.gz --illumina -o outdir/Getting the latest index and using it
# download latest TB database
drprg index --download mtb
# list available indices
drprg index --list
# prediction (paired-end fastq files much be contatenated together into one)
drprg predict -x mtb -i input.fastq.gz --illumina -o outdir/