9 projects
isograph
A Python framework for discovering isoform-switch and splicing modules from bulk RNA-seq by combining gene-local compositional modeling with splice-graph-aware latent network inference.
localqtl
GPU-accelerated ancestry-aware cis-QTL mapping library with tensorQTL-compatible APIs
bsvae
Gaussian Mixture VAE for multi-modal biological module discovery in omics data.
genboostgpu
GENBoostGPU provides a scalable framework for running elastic net regression with boosting across thousands of CpG sites, leveraging GPU acceleration with RAPIDS cuML, CuPy, and cuDF.
rfmix-reader
RFMix-reader is a Python package designed to efficiently read and process output files generated by RFMix, a popular tool for estimating local ancestry in admixed populations. The package employs a lazy loading approach, which minimizes memory consumption by reading only the loci that are accessed by the user, rather than loading the entire dataset into memory at once.
pandas-plink-ng
Fork of pandas-plink with NumPy >=2.0 support and modern Python/GPU-stack compatibility
dRFEtools
Dynamic recursive feature elimination utilities built on scikit-learn.
py-qvalue
A Python package providing ports of statistical methods originally implemented in R.
