Pinned Repositories
2018_Lrp_ChIP
Code used for the analysis of Lrp ChIP-seq and RNA-seq data
2020_PGen_analysis
2023_mut_scan_analysis
3DUnetCNN
Keras 3D U-Net Convolution Neural Network (CNN) designed for medical image segmentation
504GitExercise
Code to demonstrate simple use of github
bgtools
Simple utilities for operating on bedgraph file data
bio-anno-rs
A collection of rust utilities for reading/handling/writing file formats commonly used in bioinformatics
bpnet-lite
This repository hosts a minimal version of a Python API for BPNet.
ChIPseq_pipeline
A general ChIP-seq pipeline to reproducibly process many samples at once.
enricherator
Tools for inferring genome-wide enrichment of sequencing counts vs. input counts
jwschroeder3's Repositories
jwschroeder3/enricherator
Tools for inferring genome-wide enrichment of sequencing counts vs. input counts
jwschroeder3/2018_Lrp_ChIP
Code used for the analysis of Lrp ChIP-seq and RNA-seq data
jwschroeder3/2020_PGen_analysis
jwschroeder3/2023_mut_scan_analysis
jwschroeder3/3DUnetCNN
Keras 3D U-Net Convolution Neural Network (CNN) designed for medical image segmentation
jwschroeder3/504GitExercise
Code to demonstrate simple use of github
jwschroeder3/bgtools
Simple utilities for operating on bedgraph file data
jwschroeder3/bio-anno-rs
A collection of rust utilities for reading/handling/writing file formats commonly used in bioinformatics
jwschroeder3/bpnet-lite
This repository hosts a minimal version of a Python API for BPNet.
jwschroeder3/ChIPseq_pipeline
A general ChIP-seq pipeline to reproducibly process many samples at once.
jwschroeder3/CMARRT_python
Python implementation of the CMARRT algorithm for peak calling
jwschroeder3/cmdstan
CmdStan, the command line interface to Stan
jwschroeder3/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.
jwschroeder3/hbd_enrichment_code
jwschroeder3/idr
IDR
jwschroeder3/info_theory
A collection of utilities written in rust for basic information theory
jwschroeder3/lab_meeting
Code for lab meeting 2020-04-14
jwschroeder3/mm3
Version 3 of Python mother machine analysis code
jwschroeder3/NAPper
Utilities and examples for screening a proteome for potential NAPs using transcriptomics data
jwschroeder3/nested_sampling
jwschroeder3/noodles
Bioinformatics I/O libraries in Rust
jwschroeder3/numpyro
Probabilistic programming with NumPy powered by JAX for autograd and JIT compilation to GPU/CPU.
jwschroeder3/onder_tnseq_analysis
Code used to produce tn-seq insertion fold-change for first submission
jwschroeder3/optimize_rs
jwschroeder3/qpcr_analysis
jwschroeder3/rstan
RStan, the R interface to Stan
jwschroeder3/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.