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fastq-dl
Download FASTQ files from SRA or ENA repositories.dragonflye
π πͺ° Assemble bacterial isolate genomes from Nanopore readsfastq-scan
Output FASTQ summary statistics in JSON formatvcf-annotator
Add biological annotations to variants in a given VCF file.pbptyper
In silico Penicillin Binding Protein (PBP) typer for Streptococcus pneumoniae assembliesassembly-scan
Generate basic stats for an assembly.illumina-cleanup
A simple pipeline for pre-processing Illumina FASTQ files.goblin
GOBLIN - Generate trusted prOteins to supplement BacteriaL annotatIoNany2tsv
Convert various bioinformatic outputs to TSVcall_variants
A ruffus pipeline to call variants following GATK best practices.steamboat-py
A collection of tools/scripts for microbial bioinformaticsdjango-kmer-test
Tests to determine the most efficient way to store DNA k-mers.workshops
A repository of trainings and workshopsStarCluster-Plugins
A few plugins created for Staphopia's StarCluster instancesfitbit-steps
Pull yesterday's total steps from FitBitbinf-scripts
Personal bioinformatic related scripts that need a home.camlhmp
πͺClassification through yAML Heuristic Mapping Protocol πͺadmin
basic scripts for server administrationLove Open Source and this site? Check out how you can help us