Pinned Repositories
abricate
:mag_right: :pill: Mass screening of contigs for antimicrobial and virulence genes
abricate_ecoli_K_typing
ABRicate database to identify K1, K2 and K5 genes in Escherichia coli WGS data
ABRicate_to_prokka
Match ABRicate hits to Prokka locus tags based on contig names and locations
assembly_snptyper
Type assembly based on a VCF using minimap2 + samtools
benchmark_SIGNL
Repository for the pipeline used in the SIGNL benchmark
extract_genes_ABRicate
Small script to use ABRicate output to extract genes from genome assemblies, reverse complement if necessary, and print to a file
itolparser
Small script to produce iTOL colorstrip metadata files from a table
pacbio_methylation_snakemake
Small pipeline to call methylation in Streptococcus suis using standard PacBio tools
snakemake_lisa
Test repository for running Snakemake on Lisa
Ssuis_genomic_epidemiology
Repo with Snakemake pipeline to analyse genomic epidemiology data of European Streptococcus suis whole-genome sequencing data
boasvdp's Repositories
boasvdp/network_analysis_scripts
Collection of network analysis scripts for ANI and/or SNP data
boasvdp/SNP-distance-analysis
boasvdp/benchmark_SIGNL
Repository for the pipeline used in the SIGNL benchmark
boasvdp/snakemake_lisa
Test repository for running Snakemake on Lisa
boasvdp/benchmarking-refseq