kharchenkolab / scITD
Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition
☆55Updated 10 months ago
Alternatives and similar repositories for scITD:
Users that are interested in scITD are comparing it to the libraries listed below
- R package for pathway analysis in scRNA-seq data☆69Updated 6 months ago
- Aligning gene expression trajectories of single-cell reference and query systems☆59Updated 4 months ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆70Updated 9 months ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆50Updated 4 months ago
- Coarse-graining of large single-cell RNA-seq data into metacells☆72Updated 5 months ago
- Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…☆46Updated this week
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆61Updated 2 years ago
- Functions for single cell data analysis☆29Updated 3 years ago
- An R package performing object conversion from ArchRProject (ArchR) to Signac SeuratObject (Signac)☆34Updated 5 months ago
- inferring cell-cell communication from scRNA-seq of ligand-receptor☆77Updated last year
- Collection of scripts for analysis of pan fetal immune atlas☆26Updated 2 years ago
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆26Updated 2 months ago
- Functional Inference of Gene Regulation☆40Updated 7 months ago
- Single cell omics biology annotations☆49Updated 3 weeks ago
- Single-cell Case Control Analysis☆48Updated 3 months ago
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆28Updated 8 months ago
- ☆59Updated 5 years ago
- Estimation of Single-Cell Potency with Single Cell Entropy☆39Updated last year
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆59Updated 8 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆62Updated this week
- This repository contains all code used for the Human Lung Cell Atlas project.☆46Updated last year
- Multi-resolution Variational Inference☆22Updated this week
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆71Updated 3 months ago
- scWGCNA☆56Updated 2 years ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆68Updated 3 weeks ago
- Single-cell Lung Cancer Atlas with 1.2M cells☆59Updated last month
- Repository for the building, sharing and editing of scRNAseq pipelines for the Lung Cell Atlas☆32Updated 4 years ago
- Accurate and fast cell marker gene identification with COSG☆41Updated last year
- Analysis of cell-cell communication at single-cell resolution☆100Updated 5 months ago