Pinned Repositories
AdvancedInformatics2021
Course materials for 2021
ComputerSkills4GradStudents
"Text book" for Advanced Bioinformatics class at UCI
Cridland2013AnnotPipeline
TE annotation pipeline from Cridland et al. (2013) doi: 10.1093/molbev/mst129
Cridland2013pipeline
TE presence/absence calling pipeline from Cridland et al. (2013) doi: 10.1093/molbev/mst129
cuda_installation_ubuntu
How we got CUDA installed and Tensor Flow working with GPU
diploshic_sim_example
Example using simulated data.
ESMtest
A PLINK-based implementation of the "ESM" test from Thornton, Foran and Long (2013)
RMarkdown_beamer_slides_template
Template repository for LaTeX "beamer" slides generated in R Markdown
tutorials
Light tutorials on coding techniques
visual-popgen
Jupyter book of course notes related to population genetics.
Kevin Thornton's lab group at UC Irvine's Repositories
ThorntonLab/visual-popgen
Jupyter book of course notes related to population genetics.
ThorntonLab/AdvancedInformatics2021
Course materials for 2021
ThorntonLab/ComputerSkills4GradStudents
"Text book" for Advanced Bioinformatics class at UCI
ThorntonLab/cuda_installation_ubuntu
How we got CUDA installed and Tensor Flow working with GPU
ThorntonLab/AdvancedInformatics2017
Materials for EE283
ThorntonLab/annotation_methods
Methods for genome annotation using paired-end RNA-seq data
ThorntonLab/Cridland2013AnnotPipeline
TE annotation pipeline from Cridland et al. (2013) doi: 10.1093/molbev/mst129
ThorntonLab/Cridland2013pipeline
TE presence/absence calling pipeline from Cridland et al. (2013) doi: 10.1093/molbev/mst129
ThorntonLab/diploshic_sim_example
Example using simulated data.
ThorntonLab/ESMtest
A PLINK-based implementation of the "ESM" test from Thornton, Foran and Long (2013)
ThorntonLab/RMarkdown_beamer_slides_template
Template repository for LaTeX "beamer" slides generated in R Markdown
ThorntonLab/RMarkdown_manuscript_template
Template for an article written using RMarkdown
ThorntonLab/tutorials
Light tutorials on coding techniques
ThorntonLab/disease_sims
ThorntonLab/AdvInformatics2019Assignment1
Assignment 1
ThorntonLab/Burger2000
Notes for reading group on Burger's 2000 book.
ThorntonLab/demes_post_code
Code for blog post about demes
ThorntonLab/DGRPmasked
IBD regions identified in DGRP lines by Cridland et al. (2013) doi: 10.1093/molbev/mst129
ThorntonLab/DrosophilaPopGenData-Rogers2015
Population Genomic Data and SNPs for Drosophila yakuba and Drosophila simulans
ThorntonLab/EE283Winter2019
Materials for EE283, winter 2019
ThorntonLab/fwdpy11_arg_example
Example of tracking the ARG during forward simulations. Implementation is a Python package using fwdpp, fwdpy11, msprime, and pybind11.
ThorntonLab/getsimyak
Shell scripts to download raw data for simulans and yakuba resequencing
ThorntonLab/hpc_python
Tips on compiling python stuff using the lab's module/anaconda hybrid
ThorntonLab/intro2github
Quick intro to github. Contents for UCI journal club on the topic
ThorntonLab/LabProtocols
Documenting protocols used in the lab. (These are all computational!)
ThorntonLab/remark_slides_template
ThorntonLab/RMarkdown_remark_slides_template
Template repository for "remark" slides generated via R Markdown
ThorntonLab/TFL2013sim
Simulation code from Thornton, Foran and Long (2013) PloS Genetics
ThorntonLab/ThorntonLab.github.io
Website for Kevin Thornton's lab at UC Irvine
ThorntonLab/ThorntonLabToolkit
Various scripts, etc., for helping write papers.