gymreklab

GangSTR

A tool for profiling long STRs from short reads

mutea-autosomal

Mutation rate analysis of autosomal loci

STRDenovoTools

Toolkit for calling and analyzing de novo STR mutations

chips

Simulation tool for ChIP- and other -seq experiments

cse185-spring19

Course website for CSE 185 Spring 2019

ssc-denovos-paper

Scripts and notebooks for generating results in Mitra et al. 2020

dbstr

dbstr

1000Genomes-TR-Analysis

Scripts for analysis of TR callsets in 1000G high coverage data

agent-bind-analyses

gymreklab-aws-batch

Framework for running jobs on AWS batch

SISTR

Selection Inference on Short Tandem Repeats (SISTR): A method to measure negative selection at short tandem repeats

STR-Evolution-Review

Scripts used for analysis in Verbiest et al.

BXD-STR-Mutator-Manuscript

cse185-course-docker

Dockerfile for UCSD course CSE185 (Advanced Bioinformatics Laboratory)

cse185-demo-project

Demo CSE185 Project

cse185-spring20

Course website for CSE 185 Spring 2020

cse284-spring20

Course website for CSE 284 Spring 2020

gymreklab-misc

Miscellaneous lab items

gymreklab-primers

Github primer!

gymreklab.github.io

Automatically redirects to gymreklab.com

ldsc

LD Score Regression (LDSC)

nbgrader

A system for assigning and grading notebooks

pangenome-sandbox

pgc_analysis

qqman

Draws Manhattan plot and QQ plot using plink assoc output.

str-ngs-simulator

str-tf-spacing

Exploring the role of tandem repeats in regulatory element spacing

STREvolution

trans-eQTL

TReeOfLife

Cross-species analysis of tandem repeat variation