jwschroeder3's repositories
enricherator
Tools for inferring genome-wide enrichment of sequencing counts vs. input counts
bio-anno-rs
A collection of rust utilities for reading/handling/writing file formats commonly used in bioinformatics
onder_tnseq_analysis
Code used to produce tn-seq insertion fold-change for first submission
ChIPseq_pipeline
A general ChIP-seq pipeline to reproducibly process many samples at once.
bgtools
Simple utilities for operating on bedgraph file data
info_theory
A collection of utilities written in rust for basic information theory
cmdstan
CmdStan, the command line interface to Stan
stan
Stan development repository. The master branch contains the current release. The develop branch contains the latest stable development. See the Developer Process Wiki for details.
rstan
RStan, the R interface to Stan
504GitExercise
Code to demonstrate simple use of github
noodles
Bioinformatics I/O libraries in Rust
mm3
Version 3 of Python mother machine analysis code
NAPper
Utilities and examples for screening a proteome for potential NAPs using transcriptomics data
idr
IDR
CMARRT_python
Python implementation of the CMARRT algorithm for peak calling
lab_meeting
Code for lab meeting 2020-04-14
codebook_organizer
For generating all possible N-bit codes for N bits, and organizing the resulting codebook to facilitate library creating in 96-well plates used in biology.
2018_Lrp_ChIP
Code used for the analysis of Lrp ChIP-seq and RNA-seq data
numpyro
Probabilistic programming with NumPy powered by JAX for autograd and JIT compilation to GPU/CPU.
3DUnetCNN
Keras 3D U-Net Convolution Neural Network (CNN) designed for medical image segmentation