#
Starred repositories
A Rich renderable for viewing Multiple Sequence Alignments in the terminal.
Symmetric DUST for finding low-complexity regions in DNA sequences
Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
Rapid builds of small Conda-based containers using micromamba.
Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework
A modular, reusable university course for Rust
Similarity networks of biosynthetic gene clusters
Tandem repeat expansion detection or genotyping from long-read alignments
CAMISIM: Simulating metagenomes and microbial communities
Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight wrapper of the HTSlib API, the same one that powers samtool…
Pure Rust implementation of Gunzip from scratch in 1000 lines
A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.
MaAsLin3: Microbiome Multivariate Association with Linear Models
GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more
💎 An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
Mumemto: multi-MUM and MEM finding across pangenomes
A tool for generating consensus long-read assemblies for bacterial genomes
Providing up-to-date phage genome databases, metrics and useful input files for a number of bioinformatic pipelines.
Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
Python tool for converting files and office documents to Markdown.
jordibc / mauve
Forked from koadman/mauveA genome alignment and visualization system