flowcraft

Mass screening of contigs for antimicrobial and virulence genes

St. Petersburg genome assembler – is an assembly toolkit containing various assembly pipelines

A quality control tool for high throughput sequence data.

MaxBin2 docker container

Docker image for mlst software (Torsten Seemann)

Docker image for sra-tools

Docker container for bwa and samtools

Docker image for vamb - Variational autoencoder for metagenomic binning

Docker container for metabat

Docker container for kraken2 with minikraken2 DB (v1)

Docker image for concoct, including samtools and bowtie2

Docker container for braken with DB files for minikracken2 v1 DB

Docker container for seq_typing with dengue DB

INNUCA true coverage standalone

Reads mapping against target sequences, checking mapping and consensus sequences production

Docker image for python3's plotly

Docker image for the integrity_coverage component

Determine which reference sequence is more likely to be present in a given sample

Strategic Kmer Extension for Scrupulous Assemblies

A docker image for diamond that may be used to build databases and run diamond

docker image for bandage

A docker image for abyss

docker container for krona

Docker container for metaphlan2

a docker image for patlas mapping process for flowcraft

A docker container for patlas mash processes for flowcraft

Docker container for Bowtie2 and samtools with Dengue Virus database

Python module for average nucleotide identity analyses http://widdowquinn.github.io/pyani/

docker container for raxml

Docker image for fastANI