Stars
What should perfect bioinformatic tools be like?
a simple tool for listing conda environments with descriptions
a quality control tool for bacterial ONT-only assemblies
Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.
Predict the function of phage hypothetical proteins using an LSTM model trained with Phage Synteny
Explore genomes in the terminal. Light, blazing fast 🚀, vim-motion.
A pipeline for for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets
Extremely fast and accurate Nanopore demultiplexing
metagenomics pipeline for BGCs identification
Lightweight bioinformatics pipeline for microbial genome recovery
A toolbox for pangenome analysis and threshold evaluation.
Miscellaneous Perl scripts from 20 years in microbial bioinformatics
Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)
A tool to generate a JSON diff between two GFF files, written in Rust
codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, prophage, etc.) relative to the full genome.
The lean application framework for Python. Build sophisticated user interfaces with a simple Python API. Run your apps in the terminal and a web browser.
A command line tool that draw plots on the terminal.
Methods and classes to support Biosynthetic Gene Cluster analysis
Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.