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Peter Kruczkiewicz

Username    peterk87
Date joined   Joined

14 projects

wgscovplot

Last released

Create interactive comparative sequencing coverage plots from virus sequencing data.

miso-tool

Last released

A tool to work with sequencing run and sample info from MISO LIMS Pinery JSON data

xlavir

Last released

Excel report from viral sequencing analysis output

gfflu

Last released

Annotate Influenza A virus gene segment sequences and output GFF3 files.

sistr-cmd

Last released

Serovar predictions from Salmonella whole-genome sequence assemblies by determination of antigen geneand cgMLST gene alleles using BLAST. Mash MinHash can also be used for serovar prediction.

shiptv

Last released

Generate a standalone HTML file with an interactive phylogenetic tree using PhyloCanvas

bio-hansel

Last released

Subtype microbial whole-genome sequencing (WGS) data using SNV targeting k-mer subtyping schemes.

refseq-masher

Last released

Mash MinHash search your sequences against a NCBI RefSeq genomes database

filter-classified-reads

Last released

Filter for reads from taxa of interest using Kraken2/Centrifuge classification results

viral-verify

Last released

viralVerify rewrite/refactor for PyPI packaging and distribution

blast2xl

Last released

BLAST output to XLSX spreadsheet

vcf-consensus-builder

Last released

Build a consensus sequence from a VCF and ref sequence masking low and no coverage positions.

enteritidis-subtyping

Last released

Subtype Salmonella Enteritidis genomes using a 33bp k-mer typing scheme

heidelberg-subtyping

Last released

Subtype Salmonella Heidelberg genomes using a 33bp k-mer typing scheme

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