rfm-targa
Follow
Stars
GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click the first link to launch: https://achtman-lab.github.io/Gra…
List of Computer Science courses with video lectures.
A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)
Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
Antimicrobial Resistance Identification By Assembly
Application and Python module for average nucleotide identity analyses of microbes.
🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results
A tool to circularize genome assemblies
PyComplexHeatmap: A Python package to plot complex heatmap (clustermap)
A genome visualization python package for comparative genomics
minimal example implementations for bioinformatics workflow managers
Ultra-deep search for novel viruses
AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.
An ultrafast memory-efficient short read aligner
Versatile open-source tool for microbiome analysis
C library for high-throughput sequencing data formats
A cross-platform, efficient and practical CSV/TSV toolkit in Golang
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
Single-cell analysis in Python. Scales to >1M cells.
Data Apps & Dashboards for Python. No JavaScript Required.
A practical cross-platform command-line tool for safely batch renaming files/directories via regular expression
Multilocus sequence typing by blast using the schemes from PubMLST
Follow up to Grace Blackwell's 661k dataset, for 2023
A full-stack framework that integrates FastAPI and React.
Plasmid analysis using rearrangement distances