Erik Clarke's repositories
ggbeeswarm
Column scatter / beeswarm-style plots in ggplot2
komplexity
A method of assessing sequence complexity based on kmer frequencies
harb-modeling
Hierarchical, autoregressive binomial models for microbiome data
github_tutorial
A hands on forking, cloning, pulling, pushing, merging tutorial.
Deepbinner
a signal-level demultiplexer for Oxford Nanopore reads
kraken-biom
Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWood/kraken).
mira-diversity
Modeling diversity attributable to exposure to antibiotics in an LTACH cohort
rust-bio-tools
A set of command line utilities based on Rust-Bio.
sbx_rgi5
Sunbeam extension for RGI v5
sbx_template
Template for Sunbeam extensions.
scid-multiomics-paper
Figures and tables for the SCID-X1 multiomics paper
shortbred-snakemake
Rules to run ShortBRED using Snakemake