Pinned Repositories
autopy
A simple, cross-platform GUI automation toolkit for Python.
biodas
A django tastypie implementation of a BioDAS server.
biopython
Official git repository for Biopython (converted from CVS)
bioruby-ngs
This plugins is intended to wrap the common software used for Next Generation Sequencing data
combat.py
python / numpy / pandas / patsy version of ComBat for removing batch effects.
d3py
a plottling library for python, based on D3
dalliance
Interactive web-based genome browser.
edgepy
python based edgeR for learning and fun
genda
genda a genetics library in pandas
mimRNA
Useful functions to use with edgeR
jeffhsu3's Repositories
jeffhsu3/octopi-research
jeffhsu3/chromax
Chromax is a breeding simulator based on JAX.
jeffhsu3/coco-annotator-ng
JsBroks COCO Annotator modernized
jeffhsu3/dash_router
A simple router for multi page Dash applications
jeffhsu3/DAStk
Differential ATAC-seq toolkit
jeffhsu3/funsearch
jeffhsu3/gspread-pandas
A package to easily open an instance of a Google spreadsheet and interact with worksheets through Pandas DataFrames.
jeffhsu3/hlb-CIFAR10
Train to 94% on CIFAR-10 in <6.3 seconds on a single A100, the current world speed record. Or ~95.79% in ~110 seconds (or less!)
jeffhsu3/i-am-listening
jeffhsu3/long-form-factuality
Benchmarking long-form factuality in large language models. Original code for our paper "Long-form factuality in large language models."
jeffhsu3/LookaheadDecoding
jeffhsu3/m2stitch
MIST-inspired microscope image stitching package
jeffhsu3/MEDIAR
(NeurIPS 2022 CellSeg Challenge - 1st Winner) Open source code for "MEDIAR: Harmony of Data-Centric and Model-Centric for Multi-Modality Microscopy"
jeffhsu3/megablocks
jeffhsu3/mesh-transformer-jax
Model parallel transformers in JAX and Haiku
jeffhsu3/napari-SAM4IS
jeffhsu3/nnUNet
jeffhsu3/opentrons-python-api
Simple (and currently incomplete) Python wrapper around the Opentrons HTTP API
jeffhsu3/PDGrapher
Combinatorial prediction of therapeutic perturbations using causally-inspired neural networks
jeffhsu3/pybedtools
Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
jeffhsu3/pybrops
Python Breeding Optimizer and Simulator: A Python library for simulating and optimizing breeding pipelines.
jeffhsu3/pylabrobot
A hardware agnostic interface and developer ecosystem for lab automation
jeffhsu3/scGPT
jeffhsu3/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
jeffhsu3/snakemake-storage-plugin-gcs
A Snakemake storage plugin for Google Cloud Storage
jeffhsu3/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
jeffhsu3/statannotations
add statistical significance annotations on seaborn plots. Further development of statannot, with bugfixes, new features, and a different API.
jeffhsu3/U-Mamba
U-Mamba: Enhancing Long-range Dependency for Biomedical Image Segmentation
jeffhsu3/vector-quantize-pytorch
Vector Quantization, in Pytorch
jeffhsu3/weak-to-strong