manifest:
name: waldronlab/metagenomics
version: 1.0.0
commands:
- command: abi-dump
docker_image: waldronlab/sratoolkit
- command: abi-load
docker_image: waldronlab/sratoolkit
- command: align-info
docker_image: waldronlab/sratoolkit
- command: bam-load
docker_image: waldronlab/sratoolkit
- command: blastn_vdb
docker_image: waldronlab/sratoolkit
- command: cache-mgr
docker_image: waldronlab/sratoolkit
- command: cg-load
docker_image: waldronlab/sratoolkit
- command: curatedMetagenomicData_pipeline.sh
docker_image: waldronlab/curatedmetagenomics
- command: dump-ref-fasta
docker_image: waldronlab/sratoolkit
- command: fasterq-dump
docker_image: waldronlab/sratoolkit
- command: fastq-dump
docker_image: waldronlab/sratoolkit
- command: fastq-load
docker_image: waldronlab/sratoolkit
- command: helicos-load
docker_image: waldronlab/sratoolkit
- command: humann3
docker_image: waldronlab/curatedmetagenomics
- command: humann3_databases
docker_image: waldronlab/curatedmetagenomics
- command: humann_renorm_table
docker_image: waldronlab/curatedmetagenomics
- command: humann_test
docker_image: waldronlab/curatedmetagenomics
- command: illumina-dump
docker_image: waldronlab/sratoolkit
- command: illumina-load
docker_image: waldronlab/sratoolkit
- command: kar
docker_image: waldronlab/sratoolkit
- command: kdbmeta
docker_image: waldronlab/sratoolkit
- command: latf-load
docker_image: waldronlab/sratoolkit
- command: merge_metaphlan_tables.py
docker_image: waldronlab/curatedmetagenomics
- command: metaphlan
docker_image: waldronlab/curatedmetagenomics
- command: pacbio-load
docker_image: waldronlab/sratoolkit
- command: prefetch
docker_image: waldronlab/sratoolkit
- command: rcexplain
docker_image: waldronlab/sratoolkit
- command: remote-fuser
docker_image: waldronlab/sratoolkit
- command: run_markers2.py
docker_image: waldronlab/curatedmetagenomics
- command: sam-dump
docker_image: waldronlab/sratoolkit
- command: sff-dump
docker_image: waldronlab/sratoolkit
- command: sff-load
docker_image: waldronlab/sratoolkit
- command: sra-blastn
docker_image: waldronlab/sratoolkit
- command: sra-pileup
docker_image: waldronlab/sratoolkit
- command: sra-search
docker_image: waldronlab/sratoolkit
- command: sra-sort
docker_image: waldronlab/sratoolkit
- command: sra-sort-cg
docker_image: waldronlab/sratoolkit
- command: sra-stat
docker_image: waldronlab/sratoolkit
- command: sra-tblastn
docker_image: waldronlab/sratoolkit
- command: srapath
docker_image: waldronlab/sratoolkit
- command: sratools
docker_image: waldronlab/sratoolkit
- command: srf-load
docker_image: waldronlab/sratoolkit
- command: strainphlan
docker_image: waldronlab/curatedmetagenomics
- command: tblastn_vdb
docker_image: waldronlab/sratoolkit
- command: test-sra
docker_image: waldronlab/sratoolkit
- command: vdb-config
docker_image: waldronlab/sratoolkit
- command: vdb-copy
docker_image: waldronlab/sratoolkit
- command: vdb-decrypt
docker_image: waldronlab/sratoolkit
- command: vdb-dump
docker_image: waldronlab/sratoolkit
- command: vdb-encrypt
docker_image: waldronlab/sratoolkit
- command: vdb-lock
docker_image: waldronlab/sratoolkit
- command: vdb-passwd
docker_image: waldronlab/sratoolkit
- command: vdb-unlock
docker_image: waldronlab/sratoolkit
- command: vdb-validate
docker_image: waldronlab/sratoolkit