BiomeHub

Basic docker image used as a base for EncodeStats.

Kraken2 from https://ccb.jhu.edu/software/kraken2/

SPAdes Genome Assembly from http://cab.spbu.ru/software/spades/

QUAST: Quality Assessment Tool for Genome Assemblies. http://quast.sf.net/quast

Bracken from https://ccb.jhu.edu/software/bracken/index.shtml

Qualimap Tool http://qualimap.conesalab.org

bcftools

Bowtie2

samtools

qiime2 : https://docs.qiime2.org/

BLC2FastQ2

vsearch

ClustalOmega

deblur

fasttree

FastQC

NCBI Blast

MegaHit

BWA short read aligner