yynst2

avocado

Avocado is a multi-scale deep tensor factorization model that learns a latent representation of the human epigenome and enables imputation of epigenomic experiments that have not yet been performed.

plotMI

Visualize intearactions learned by a machine learning model by plotting mutual information between pairwise k-mer distributions

AI-TAC

bpnet

Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them

ConceptWhitening

deeplift

Public facing deeplift repo

DeepRiPe

HpBandSter

a distributed Hyperband implementation on Steroids

janggu

Deep learning infrastructure for bioinformatics

keras-cosine-annealing

Keras implementation of Cosine Annealing Scheduler

keras-multi-head

A wrapper layer for stacking layers horizontally

keras-one-cycle

Implementation of One-Cycle Learning rate policy (adapted from Fast.ai lib)

keras-tcn

Keras Temporal Convolutional Network.

keras-tuner

Hyperparameter tuning for humans

Leopard

LightGBM

A fast, distributed, high performance gradient boosting (GBT, GBDT, GBRT, GBM or MART) framework based on decision tree algorithms, used for ranking, classification and many other machine learning tasks.

models-1

Model zoo for genomics

MotifRaptor

Explore the effect of genetic variants on transcription factor binding sites

muzero-general

MuZero

PlotNeuralNet

Latex code for making neural networks diagrams

pyomo

An object-oriented algebraic modeling language in Python for structured optimization problems.

scVI

Deep generative modeling for single-cell omics data

solo

software to detect doublets

stylegan2-ada

StyleGAN2 with adaptive discriminator augmentation (ADA) - Official TensorFlow implementation

Super-Convergence-of-Neural-Nets

Summary of the paper: "Super-Convergence, Very Fast Training of Neural Networks Using Large Learning Rates"

tfmodisco

TF MOtif Discovery from Importance SCOres

tslearn

A machine learning toolkit dedicated to time-series data

vit-pytorch

Implementation of Vision Transformer, a simple way to achieve SOTA in vision classification with only a single transformer encoder, in Pytorch

wavenet

Keras WaveNet implementation

xgboost

Scalable, Portable and Distributed Gradient Boosting (GBDT, GBRT or GBM) Library, for Python, R, Java, Scala, C++ and more. Runs on single machine, Hadoop, Spark, Flink and DataFlow