⚡ ♒ Rapid prokaryotic genome annotation

Trinity RNA-Seq de novo transcriptome assembly

A community driven framework of dotfiles.

✂️ ⚡ Rapid haploid variant calling and core genome alignment

🔎 💊 Mass screening of contigs for antimicrobial and virulence genes

Extensive de-novo TE Annotator

Rapid large-scale prokaryote pan genome analysis

🔬 ♌ Bacterial ribosomal RNA predictor

⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads

PASA software

Perl 6 installation manager

GALBA is a pipeline for fully automated prediction of protein coding gene structures with AUGUSTUS in novel eukaryotic genomes for the scenario where high quality proteins from one or several close…

💾 📃 "Reads to report" for public health and clinical microbiology

Convert various sequence formats to FASTA

source code for EVM

convert your 23andme raw file to VCF | DEPRECATED, please see https://github.com/plantimals/2vcf

A toolbox for pangenome analysis and threshold evaluation.

Automates running of OrthoMCL software from http://orthomcl.org/common/downloads/software/v2.0/

Bacterial Isolate Genome Sequence Database (BIGSdb): A platform for gene-by-gene bacterial population annotation and analysis.

Improve the quality of a denovo assembly by scaffolding and gap filling

Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.

Updated Kraken DB install scripts to cope with new-ish NCBI structure

A tutorial for learning de novo assembly

Orthology prediction using a graph-based, reciprocal approach with profile hidden Markov models

The overall codebase developed and used by the Vertebrate Resequencing group at the Sanger Institute

The final version 2 release of our software to detect core genes in eukaryotic genomes

Automatically calculate phylogenetic trees from bacterial core genes