LungCellAtlas / HLCA_reproducibilityLinks
This repository contains all code used for the Human Lung Cell Atlas project.
☆58Updated 2 years ago
Alternatives and similar repositories for HLCA_reproducibility
Users that are interested in HLCA_reproducibility are comparing it to the libraries listed below
Sorting:
- Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…☆40Updated 4 years ago
- Gene group activity utility functions for Scanpy☆100Updated last year
- Single-cell Lung Cancer Atlas with 1.2M cells☆87Updated last year
- ☆129Updated 3 years ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆81Updated last year
- R package for pathway analysis in scRNA-seq data☆77Updated last year
- inferring cell-cell communication from scRNA-seq of ligand-receptor☆85Updated 2 years ago
- ☆60Updated 3 weeks ago
- Repository for the building, sharing and editing of scRNAseq pipelines for the Lung Cell Atlas☆39Updated 5 years ago
- ☆46Updated last year
- Python implementation of Milo for differential abundance testing on KNN graph☆81Updated 11 months ago
- R implementation of GeneTrajectory☆69Updated last year
- Spatial transcriptomics of heart tissue☆107Updated 2 years ago
- Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…☆109Updated 7 months ago
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆62Updated last year
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆79Updated this week
- Metacells - Single-cell RNA Sequencing Analysis☆117Updated last year
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆84Updated 10 months ago
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆82Updated 9 months ago
- Functional Inference of Gene Regulation☆51Updated last year
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆78Updated 6 months ago
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…☆117Updated 2 years ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆138Updated 11 months ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆58Updated this week
- Spatial Cellular Estimator for Tumors☆60Updated last month
- Methods to compute Local Inverse Simpson's Index (LISI)☆72Updated 4 years ago
- Analysis of cell-cell communication at single-cell resolution☆106Updated last year
- Accurate and fast cell marker gene identification with COSG☆54Updated 2 weeks ago
- trajectory inference☆105Updated last year
- ☆66Updated 2 years ago