Zhijian Li's repositories
lzj1769.github.io
Personal academic website
bioconda-recipes
Conda recipes for the bioconda channel.
Ad-papers
Papers on Computational Advertising
ATACtools
Tools for analysis of ATAC-seq
awesome-topic-models
✨ Awesome - A curated list of amazing Topic Models (implementations, libraries, and resources)
chromap
Fast alignment and preprocessing of chromatin profiles
chrombpnet
Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)
dictys
Context specific and dynamic gene regulatory network reconstruction and analysis
ecosystem-packages
Registry for scverse ecosystem packages
epi-SHARE-seq-pipeline
Epigenomics Program pipeline to analyze SHARE-seq data.
MAST
Tools and methods for analysis of single cell assay data in R
metaseq
Framework for integrated analysis and plotting of ChIP/RIP/RNA/*-seq data
MetBrewer
Color palette package in R inspired by works at the Metropolitan Museum of Art in New York
muon
muon is a multimodal omics Python framework
pyranges
Performant Pythonic GenomicRanges
scikit-learn
scikit-learn: machine learning in Python
scvi-tools
Deep probabilistic analysis of single-cell omics data
spatial-factorization-py
Probabilistic factor models for spatially correlated data. Includes nonnegative and real-valued versions.
trendsceek
Identify genes with spatial expression trends in single-cell gene expression data
tutorial-template
Template for the Read the Docs tutorial
umap
Uniform Manifold Approximation and Projection
visium_heart
Spatial transcriptomics of heart tissue
zenodo-upload
upload big files to Zenodo using cURL, jq and bash