Command to test tools

TOOL biom_to_stdbiom

docker run -v $(pwd):/root -w /root biom2stdbiom:1.1.1 biom_to_stdBiom.py -b example.biom

TOOL biom_to_tsv

docker run -it --rm -v $(pwd):/root biom_to_tsv:2.1.0 biom_to_tsv.py -b /root/example.biom

TOOL clusters_stat

docker run -v $(pwd):/root -w /root clusters_stat:1.4.0 clusters_stat.py -i example.biom -o example_summary.out

TOOL demultiplex

docker run -it --rm -v $(pwd):/root -w /root demultiplex:1.1.0 demultiplex.py --input-R1 test.fastq --input-barcode index.tsv

TOOL filters

docker run -it --rm -v $(pwd):/root -w /root filters:1.1.0 filters.py --input-biom example.biom --input-fasta db.fasta -a 0.5

TOOL upload_tar