KidElectric

struct-lmm

Structured Linear Mixed Model is a method to test for loci that interact with multiple environments.

CellRegMap

CellRegMap: A statistical framework for mapping context-specific regulatory variants using scRNA-seq

LMM_DGE_Pipeline

lung-tumour-study

Github repository for my Bachelor's thesis. It is dedicated to study lung tumour through WSI.

Weylus

Use your tablet as graphic tablet/touch screen on your computer.

AutoUnmix

The official Pytorch code for AutoUnmix, an autoencoder-based spectral unmixing method for multi-color fluorescence microscopy imaging

medical-imaging-datasets

A list of Medical imaging datasets.

imbalanced-dataset-sampler

A (PyTorch) imbalanced dataset sampler for oversampling low frequent classes and undersampling high frequent ones.

HIPT

Hierarchical Image Pyramid Transformer - CVPR 2022 (Oral)

Augmentation-PyTorch-Transforms

Image data augmentation on-the-fly by add new class on transforms in PyTorch and torchvision.

PORPOISE

Pan-Cancer Integrative Histology-Genomic Analysis via Multimodal Deep Learning - Cancer Cell

smooth-topk

Smooth Loss Functions for Deep Top-k Classification

champkit

Benchmarking toolkit for patch-based histopathology image classification.

CLAM

Data-efficient and weakly supervised computational pathology on whole slide images - Nature Biomedical Engineering

nmi-wsi-diagnosis

Pathologist-level interpretable whole-slide cancer diagnosis with deep learning

PathoNet

generative_agents

Generative Agents: Interactive Simulacra of Human Behavior

micro-sam

Segment Anything for Microscopy

immunarch

🧬 Immunarch: an R Package for Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires

CellphoneDB

CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.

stanford_alpaca

Code and documentation to train Stanford's Alpaca models, and generate the data.

awesome-monome-norns

A compendium about the monome norns

lemur

Latent Embedding Multivariate Regression

pySCENIC

pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.

ImmClassifier

pathml

Tools for computational pathology

WSIRegistration

VAT-pytorch

Virtual Adversarial Training (VAT) implementation for PyTorch

MixMatch-pytorch

Code for "MixMatch - A Holistic Approach to Semi-Supervised Learning"

Digital_Pathology_Transfer_Learning