Snitkin-Lab-Umich
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Showing 10 of 56 repositories
- SNPmake_cauris Public Forked from Snitkin-Lab-Umich/SNPmake
Updated Snakemake implementation of SNPkit for microbial variant calling, filtering, masking and reference based consensus alignment generation.
- cauris_dotplot Public
A set of simple scripts for generating synteny dot plots from C auris assemblies
- NG-probe Public
A Snakemake pipeline for culture-free Neisseria gonorrhoeae genome reconstruction and detection of putative resistance determinants from probe-based genomic sequencing.
- snpkit Public Forked from alipirani88/snpkit
Active version of snpkit, a Modular/Scalable workflow for Microbial Variant Calling, Recombination detection and Phylogenetic tree reconstruction.
- pangenome_blast_smk Public
A snakemake pipeline for comparing Panaroo pangenome results against a BLAST search
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