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abricate

:mag_right: :pill: Mass screening of contigs for antimicrobial and virulence genes

bacant-1

This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.

deepspeed

DeepSpeed is a deep learning optimization library that makes distributed training and inference easy, efficient, and effective.

deepvirfinder

Identifying viruses from metagenomic data by deep learning

finishingtool

finshingTool

flye

De novo assembler for single molecule sequencing reads using repeat graphs

fprimer

automatically deisgn primer and validate primer specificity

gubbin-snp

hifiasm

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

incubator-echarts

A powerful, interactive charting and visualization library for browser

kraken2

The second version of the Kraken taxonomic sequence classification system

metawrap

MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis

polypolish

a short-read polishing tool for long-read assemblies

speciesprimer

The SpeciesPrimer pipeline is intended to help researchers finding specific primer pairs for the detection and quantification of bacterial species in complex ecosystems.

staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

trycycler

A tool for generating consensus long-read assemblies for bacterial genomes

wtdbg2

Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly