kharchenkolab / scITDLinks
Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition
☆61Updated last year
Alternatives and similar repositories for scITD
Users that are interested in scITD are comparing it to the libraries listed below
Sorting:
- Aligning gene expression trajectories of single-cell reference and query systems☆76Updated 2 months ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 3 years ago
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆33Updated last year
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆56Updated 5 months ago
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆29Updated 10 months ago
- ☆59Updated 4 months ago
- Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics☆41Updated 2 months ago
- R package for pathway analysis in scRNA-seq data☆75Updated last year
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆80Updated 7 months ago
- Functional Inference of Gene Regulation☆48Updated last year
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆78Updated 6 months ago
- Multi-resolution Variational Inference☆22Updated last week
- Estimation of Single-Cell Potency with Single Cell Entropy☆43Updated 2 years ago
- SenePy is a set of tools to score single-cells based on their expression of cell-specific senescence markers. Please see the following pu…☆44Updated 8 months ago
- We describe a transcriptional reference map of human natural killer (NK) cells based on analysis of scRNA-seq data from both blood and ti…☆13Updated last year
- ☆45Updated last year
- Gene group activity utility functions for Scanpy☆93Updated 10 months ago
- ☆31Updated 3 months ago
- R implementation of GeneTrajectory☆65Updated last year
- ☆58Updated last month
- Single cell omics biology annotations☆51Updated 6 months ago
- Functions for single cell data analysis☆32Updated 4 years ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆89Updated 4 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆66Updated 3 weeks ago
- All code associated with manuscript detailing scATAC and scRNA-seq following stimulus of PBMCs☆41Updated 2 years ago
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆33Updated 3 years ago
- Python implementation of Milo for differential abundance testing on KNN graph☆74Updated 8 months ago
- Code used to create the core and extended GBmap, including downstream analyses (cell-cell interactions, spatial transcriptomics deconvolu…☆63Updated 2 years ago
- Unsupervised Inference of Developmental Directions for Single Cells☆22Updated last year
- MERCI for tracing of mitochondrion transfer between single cancer and T cells☆23Updated last year