huidongchen

pytorch-deep-learning

Materials for the Learn PyTorch for Deep Learning: Zero to Mastery course.

simba

SIMBA: SIngle-cell eMBedding Along with features

simba

SIMBA: SIngle-cell eMBedding Along with features

cs-video-courses

List of Computer Science courses with video lectures.

tftargets

:dart: Human transcription factor target genes from 6 databases in convenient R format.

spektral

Graph Neural Networks with Keras and Tensorflow 2.

mamba

The Fast Cross-Platform Package Manager

ArchR

ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)

adjustText

A small library for automatically adjustment of text position in matplotlib plots to minimize overlaps.

rapids-single-cell-examples

Examples of single-cell genomic analysis accelerated with RAPIDS

pyranges

Performant Pythonic GenomicRanges

kbc

Tools for state of the art Knowledge Base Completion.

singlecellvr

sql

Top2Vec

Top2Vec learns jointly embedded topic, document and word vectors.

gencode_regions

Extract 3'UTR, 5'UTR, CDS, Promoter, Genes, Introns, Exons from GTF files

karateclub

Karate Club: An API Oriented Open-source Python Framework for Unsupervised Learning on Graphs (CIKM 2020)

dynbenchmark

Comparison of methods for trajectory inference on single-cell data 🥇

PyTorch-BigGraph

Generate embeddings from large-scale graph-structured data.

awesome-bioinformatics-benchmarks

A curated list of bioinformatics bench-marking papers and resources.

elpigraph-python

Python implementation of the ElPiGraph algorithm with cpu and gpu support

scATACutils

R/Bioconductor package for working with 10x scATACseq data

machine-learning-resource

deep-review

A collaboratively written review paper on deep learning, genomics, and precision medicine

EDS

:bulb: :floppy_disk: :minidisc: A simple, intuitive and Efficient single cell binary Data Storage format

ruimtehol

R package to Embed All the Things! using StarSpace

hs19-var

Visualizing single-cell RNA-seq experiments at a life-size scale in 3-D

awesome-network-embedding

A curated list of network embedding techniques.

awesome-embedding-models

A curated list of awesome embedding models tutorials, projects and communities.

Elmo-Tutorial

A short tutorial on Elmo training (Pre trained, Training on new data, Incremental training)