Kurt Showmaker's repositories
awesome-public-datasets
A topic-centric list of HQ open datasets.
AGAT
Another Gtf/Gff Analysis Toolkit
albumentations
Fast image augmentation library and an easy-to-use wrapper around other libraries. Documentation: https://albumentations.ai/docs/ Paper about the library: https://www.mdpi.com/2078-2489/11/2/125
bestpractices_workshop
Draft repo for the "best practices" workshop
bioinformatics-workbook
Bioinformatics Workbook repository
docs
The open-source repo for docs.github.com
examples
bioinformatic examples
expfactory
software to generate a reproducible container with a battery of experiments
FriendsDontLetFriends
Friends don't let friends make certain types of data visualization - What are they and why are they bad.
kurtshowmaker.github.io
Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes
mikado
Mikado is a lightweight Python3 pipeline whose purpose is to facilitate the identification of expressed loci from RNA-Seq data * and to select the best models in each locus.
nf-flu
Influenza genome analysis Nextflow workflow
panel
A high-level app and dashboarding solution for Python
pangenome-workflow
A Snakemake workflow for microbial pangenomics analyses.
pearc22-portable-computing-cloud-hpc
https://tacc-cloud.github.io/pearc22-portable-computing-cloud-hpc/
R-undergrad
Data Analysis and Visualization in R
RPi-PXE-Server
setup a Raspberry Pi as an PXE-Server
sage
Proteomics searching so fast it feels like magic
ViReMaDocker
Docker image for ViReMa ver 0.25
ViReMaShiny
ViReMaShiny is an R Shiny application that allows for quick analysis of viral recombination data from the ViReMa pipeline.