yuta-s79's Stars
posit-dev/positron
Positron, a next-generation data science IDE
bowang-lab/scGPT
morris-lab/CellOracle
This is the alpha version of the CellOracle package
oreilly-japan/deep-learning-from-scratch-5
『ゼロから作る Deep Learning ❺』(O'Reilly Japan, 2024)
Xinglab/rmats-turbo
universvm/how_to_create_a_protein
A short course on proteins and protein design aimed at early career students
drostlab/philentropy
Information Theory and Distance Quantification with R
immunogenomics/SCENT
Single-Cell ENhancer Target gene mapping using multimodal data with ATAC + RNA
abelson-lab/scATOMIC
Pan-Cancer Single Cell Classifier
edsgard/trendsceek
Identify genes with spatial expression trends in single-cell gene expression data
gaolabtools/scNanoGPS
Single cell Nanopore sequencing data for Genotype and Phenotype
navinlabcode/HumanBreastCellAtlas
Repository for codes for the HBCA paper
JinmiaoChenLab/ezSingleCell2
CostaLab/scopen
scOpen: single-cell open chromatin analysis via NMF modelling
fuscc-deep-path/sc_MTOP
sc-MTOP is an analysis framework based on deep learning and computational pathology. This framework aims to characterize the tumor ecosystem diversity at the single-cell level. This code provide 1) Hover-Net-based nuclear segmentation and classification; 2) Nuclear morphological and texture feature extraction; 3) Multi-level pairwise nuclear graph construction and spatial topological feature extraction.
genemine/iread
iread
ManchesterBioinference/IntegratingATAC-RNA-HiC
scripts for the integrating ATAC-seq, RNA-seq and CHi-C paper
heavywatal/tumopp
🦀 Tumor growth simulation in C++/R
atakanekiz/CIPR-Package
Cluster Identity Predictor (R package implementation)
satijalab/PASTA
dbsb-juntendo/descSPIM
User-affordable and versatile light-sheet microscopy system for cleared specimens
MonashBioinformaticsPlatform/polyApipe
polyApipe
PeterZZQ/scDART
zji90/SCATE
SCATE: Single-cell ATAC-seq Signal Extraction and Enhancement
davcem/cpm-cytoscape
Implementation of the Cellular Potts Model with cytoscape.js
Chillig/ST_biostatistical_analysis
Code to investigate hallmark cytokine transcripts in ncISDs
WangX-Lab/DEPTH
rsinghlab/scGrapHiC
A graph deconvolution approach to predict Hi-C contact map from pseudo-bulk scRNA-seq.
SFGLab/HiCDiffusion
KoheiKumegawa/BRCA_celllines
Publication Page for Yang & Kumegawa et al., 2024