AbigailShockey
Data Scientist | Wisconsin State Laboratory of Hygiene | Communicable Disease Division | They/Them
Pinned Repositories
artic_ncov19_ONT_nextflow
docker-builds
Dockerfiles and documentation on tools for public health bioinformatics
dryad
Generate various phylogenetic trees from raw short read sequences
genomeClusterReport
Generate a genomic clustering report using R Markdown
ggtree
:christmas_tree:Visualization and annotation of phylogenetic trees
github_tutorial
midwest-region
Site for AMD Midwest Region
MjolnirTree
Construct a neighbor-joining tree using a hamming distances calculated from a gene presence/absence matrix
portfolio
reports
A repository for genomic analysis reports
AbigailShockey's Repositories
AbigailShockey/MjolnirTree
Construct a neighbor-joining tree using a hamming distances calculated from a gene presence/absence matrix
AbigailShockey/artic_ncov19_ONT_nextflow
AbigailShockey/docker-builds
Dockerfiles and documentation on tools for public health bioinformatics
AbigailShockey/dryad
Generate various phylogenetic trees from raw short read sequences
AbigailShockey/genomeClusterReport
Generate a genomic clustering report using R Markdown
AbigailShockey/ggtree
:christmas_tree:Visualization and annotation of phylogenetic trees
AbigailShockey/github_tutorial
AbigailShockey/midwest-region
Site for AMD Midwest Region
AbigailShockey/portfolio
AbigailShockey/reports
A repository for genomic analysis reports
AbigailShockey/scripts
Collections of miscellaneous scripts
AbigailShockey/snp-pipeline
SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organisms sequenced from samples of interest to food safety.
AbigailShockey/spriggan
Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.
AbigailShockey/sputum
AbigailShockey/staphb_toolkit
Python Toolkit for using containerized programs in either Singularity or Docker
AbigailShockey/trees
Scripts for generating and plotting trees
AbigailShockey/webinar_materials
Repository for the scripts and other materials from webinars I've developed