A grammar for describing microbial genotypes and phenotypes
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Updated
Sep 4, 2017 - Python
A grammar for describing microbial genotypes and phenotypes
Tools for phylogenetic data analysis including visualization and cluster-computing support.
From genomes to phenotypes: Traitar, the microbial trait analyzer
Bioinformatics pipeline used for the RCPA WGS PTP
Sequence Matching fOr REpiratory Diseases, SMORE'D, is a command-line sequence classification tool tailored to meet the needs of the Undiagnosed Respiratory Disease Outbreak (URDO) branch at CDC. SMORE'D is a k-mer based classification tool capable of rapidly classifying read sequences generated by multi-pathogen detection platforms.
Small tools/scripts written in python
Align against a reference genome and call variants
Tools for phylogenetic data analysis including visualization and cluster-computing support.
Nextflow Wrapper for Mykrobe
Easy-to-use web application for visualization and comparison of genomes in Genbank file
Make mutated copies of DNA components in BioPython
Pipeline to make pairwise comparisons of matched fasta sequences.
Microbial Genome Circular plotting tool for comparative genomics using Circos
In silico serotype prediction for Listeria monocytogenes
A reference-free statistical approach to diversity-generating & mobile genetic element discovery
Nextflow wrapper for ktmeaton/ncov-recombinant
Automated genomic analysis of SARS-CoV-2 sequence data
Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies
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