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Synchronize CITATION.cff file release-date and version with latest Git tags.
CDST is an efficient, lightweight, decentralized, and easily shareable whole-genome cg/wgMLST method based on MD5 hash mapping for rapid genome typing and clustering.
Claude Code superpowers: core skills library
A rapid, accurate and flexible (core-genome) multi-locus sequence typing (MLST) allele caller.
A Python package to update the MLST database for the mlst tool.
Amplicon genome assembly for ARTIC style primer schemes using Nextflow.
A bioinformatics software focused on quality control based on species criteria
Tool for running microbial bioinformatics routine automation.
Automatically and reproducibly runs Autocycler (v. 0.4.0) with additional long-read QC, assembly reorientation, and optional short-read QC and polishing.
A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
An orchestrated sub agent dev team powered by claude code
BonoboFlow is a nextflow pipeline for viral genome assembly
Reference coverage and depth estimation using k-mers
Workflow for whole genome sequencing based phylogeny of Illumina and ONT R9/R10 data.
A pipeline for bioinformatics analysis of bacterial genomes
Functionality for working with pipeline and sample sheet schema files in Nextflow pipelines
Python code for integrating with Microreact
Dadjokes.online: Microservice echo-service as an alternative to httpbin for testing k8s, docker, kong, istio, kuma, etc. Built on FSL php microframework. Who says testing and dev ops can't be fun?
Variant calling pipeline designed for Q20+ ONT long-reads
Nextflow Alignment Pipeline - from fastq.gz to sorted bam with ease
CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data