cakeinspace

provisional_cell_ontology

Draft cell type definitions from data - candidates for inclusion in CL

mpi4jax

Zero-copy MPI communication of JAX arrays, for turbo-charged HPC applications in Python :zap:

pyPLNmodels

Blazing fast inference of PLN models built on top of Python and PyTorch

Kalman-and-Bayesian-Filters-in-Python

Kalman Filter book using Jupyter Notebook. Focuses on building intuition and experience, not formal proofs. Includes Kalman filters,extended Kalman filters, unscented Kalman filters, particle filters, and more. All exercises include solutions.

ML_4_prec_prognosis

info_measures

Python implementations of information theoretic measures

variational_bounds_of_mutual_information

python version of variational bounds of mutual information

robot

code for Fast Point Cloud Registration with Optimal Transport

misato-dataset

openmm_workshop_july2023

openmm-tutorials

Quickstart Python tutorials helping molecular dynamics practitioners get up to speed with OpenMM

human

INF515-Comparative-Genomics_fall22

Materials for the INF 515: Comparative Genomics course at NAU taught by Prof. Marc Tollis

maturin

Build and publish crates with pyo3, cffi and uniffi bindings as well as rust binaries as python packages

openai_tools

Growing collection of scripts to summarize the scientific literature using large-language models like ChatGPT.

wormcells-data

Gene expression on C. elegans single cells

CommonLoopUtils

CLU lets you write beautiful training loops in JAX.

easy-neural-ode

Code for the paper "Learning Differential Equations that are Easy to Solve"

fp-ssc-course

An introduction to functional programming for scalable statistical computing

inferelator

Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.

tuning_playbook

A playbook for systematically maximizing the performance of deep learning models.

netbooks

Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo methods..

bioinformatics

:microscope: Path to a free self-taught education in Bioinformatics!

CHM13

The complete sequence of a human genome

Primates

Complete assemblies of non-human primate genomes

xformers

Hackable and optimized Transformers building blocks, supporting a composable construction.

deep-probprog-course

Deep Probabilistic Programming Course @ DIKU

StatisticalInference

Lecture Notes on Statistical Inference

Bacterial_Genetics_Course_Packet

Course packets for Bacterial Genetics and Physiology. Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

generative-models

Repository for self-teaching of Generative Models and its applications.