Scalene: a high-performance, high-precision CPU, GPU, and memory profiler for Python with AI-powered optimization proposals

factor models for omics data

BRAID is a department within Genentech dedicated to advancing biological and clinical sciences through artificial intelligence.

Tool for IDentification and Enumeration of Spliced and Unspliced Read Fragments

Snakemake workflow for (pre-)processing sci-RNA-seq3 data

🐟 Python profile viewer

A Zotero plugin for syncing items and notes into Notion

Powerful system-level package manager for Linux, macOS and Windows written in Rust – building on top of the Conda ecosystem.

HiYaPyCo - A Hierarchical Yaml Python Config

Data Science Operations (dso) command line tool

GDC Data Transfer Tool

Display a treemap of the timings reported by python -X importtime

Unix like utilities for object store

Probabilistic cell segmentation for in situ spatial transcriptomics

Methods to use SNPs or gene expression to classify single cell RNAseq to reference profiles

Validation suite for Variant Call Format (VCF) files, implemented using C++11

Probabilistic programming with NumPy powered by JAX for autograd and JIT compilation to GPU/TPU/CPU.

A community-maintained Python framework for creating mathematical animations.

Bayesian Modeling and Probabilistic Programming in Python

Tools for sgRNA calling in direct capture Perturb-seq data

Jupyter notebook based genomic data visualization toolkit.

Software for predicting library complexity and genome coverage in high-throughput sequencing.

python module to plot beautiful and highly customizable genome browser tracks

An automated pipeline for processing DamID sequencing datasets

WASP: allele-specific pipeline for unbiased read mapping and molecular QTL discovery