Stars
Python package to study microbial communities using metabolic modeling.
Application and Python module for average nucleotide identity analyses of microbes.
PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes
VBCG: 20 validated bacterial core genes for phylogenomic analysis with high fidelity and resolution
A collection of simple JavaScript programs for generating, formatting, and analyzing short DNA and protein sequences. The Sequence Manipulation Suite is commonly used by molecular biologists, for t…
🆔 Scan contig files against PubMLST typing schemes
A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM or BAM file.
✂️ ⚡ Rapid haploid variant calling and core genome alignment
CrossMap is a python program to lift over genome coordinates from one genome version to another.
Hybrid Assembly Scripts for Nanopore + Illumina Data
Tools for fast and flexible genome assembly scaffolding and improvement
CLI and GUI based bioinformatics pipeline to automate phylogenetic analysis of CAZyme families in FASTA sequences.
A set of tools to analyse the output from TraDIS analyses
All Algorithms implemented in Python
Goldfinder detects gene co-occurrence and avoidance accounting for phylogenetic relationships
Workflow for processing NGS data from metabarcoding experiments
A modular end-to-end suite for in silico recovery, clustering, and analysis of prokaryotic, microeukaryotic, and viral genomes from metagenomes
A single-cell RNAseq pipeline for 10X genomics data