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fastq-dl
Download FASTQ files from SRA or ENA repositories.dragonflye
๐ ๐ชฐ 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.pasty
A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolatespbptyper
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 FitBitcamlhmp
๐ชClassification through yAML Heuristic Mapping Protocol ๐ชadmin
basic scripts for server administrationLove Open Source and this site? Check out how you can help us