Lee0498

StatProofBook.github.io

The Book of Statistical Proofs

SPACE

statsExpressions

Tidy data frames and expressions with statistical summaries 📜

CCN_immunotherapy

celltypist

A tool for semi-automatic cell type classification

ppi_py

A package for statistically rigorous scientific discovery using machine learning. Implements prediction-powered inference.

cSTAR_Nature

Scripts used in the paper "Control of cell state transitions" by Rukhlenko et al.

miRTalk

Extracellular vesicle-derived miRNA-mediated cell-cell communication inference for single-cell transcriptomic data

OmnipathR

R client for the OmniPath web service

splatter

Simple simulation of single-cell RNA sequencing data

preon

preon (PREcision Oncology Normalization) is a fuzzy search tool for medical entities.

SpaTrio

CCL-cGPS

A clinical genomics-guided prioritizing strategy enables accurately selecting proper cancer cell lines for biomedical research

miloDE

Framework for sensitive DE testing (using neighbourhoods)

scDIOR

scDIOR: Single cell data IO softwaRe

lemur

Latent Embedding Multivariate Regression

openai-translator

基于 ChatGPT API 的划词翻译浏览器插件和跨平台桌面端应用 - Browser extension and cross-platform desktop application for translation based on ChatGPT API.

awesome-deep-learning-single-cell-papers

ggalluvial

ggplot2 extension for alluvial plots

escape

Easy single cell analysis platform for enrichment

GrNMF

An R/Rcpp/RcppArmadillo implementation of Deng Cai's Non-negative Matrix Factorization on Manifold, sometimes called GNMF or GrNMF.

spatialDLPFC

spatialDLPFC project involving Visium (n = 30), Visium SPG (n = 4) and snRNA-seq (n = 19) samples

scGAT

Code to reproduce results in Ravindra NG* & Sehanobish A* et al. 2020, "Disease State Prediction From Single-Cell Data Using Graph Attention Networks" to appear in ACM Proceedings. <https://arxiv.org/abs/2002.07128>

contrastive

Contrastive PCA

sVAE

pub-CVAE-MRI-ASD

Code and materials for paper "Contrastive machine learning reveals the structure of neuroanatomical variation within Autism"

contrastive_vae

Contrastive Variational Autoencoders

PyTorch-VAE

A Collection of Variational Autoencoders (VAE) in PyTorch.

CellOracle

This is the alpha version of the CellOracle package

VITAE

Joint Trajectory Inference for Single-cell Genomics Using Deep Learning with a Mixture Prior