buenrostrolab / stimATAC_analyses_code
All code associated with manuscript detailing scATAC and scRNA-seq following stimulus of PBMCs
☆37Updated last year
Related projects ⓘ
Alternatives and complementary repositories for stimATAC_analyses_code
- ☆39Updated 3 years ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- Gene group activity utility functions for Scanpy☆56Updated 3 months ago
- Single cell omics biology annotations☆48Updated 2 months ago
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆25Updated last month
- Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and…☆34Updated last year
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆50Updated last month
- This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.☆30Updated 4 months ago
- ☆34Updated 6 months ago
- Aligning gene expression trajectories of single-cell reference and query systems☆46Updated last month
- R/MATLAB package to perform virtual knockout experiments on single-cell gene regulatory networks.☆36Updated 2 years ago
- Multi-omics profiling of peripheral immune system response to SARS-CoV-2 infection☆40Updated 2 years ago
- ☆37Updated 2 months ago
- Functional Inference of Gene Regulation☆37Updated 4 months ago
- scWGCNA☆55Updated 2 years ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆34Updated 8 months ago
- Coarse-graining of large single-cell RNA-seq data into metacells☆68Updated 2 months ago
- scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference☆37Updated 2 months ago
- R package for pathway analysis in scRNA-seq data☆62Updated 3 months ago
- ☆37Updated 3 years ago
- Collection of scripts for analysis of pan fetal immune atlas☆25Updated 2 years ago
- Code repository for the Tumor Immune Cell Atlas (TICA) project☆61Updated 2 years ago
- Accurate and fast cell marker gene identification with COSG☆38Updated last year
- SCDC☆42Updated last year
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆56Updated last month
- Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3☆38Updated 8 months ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆63Updated 6 months ago
- identifying disease critical cell types and programs from single cell RNAseq☆51Updated 2 years ago
- R-package for the analysis of single-cell TCR/BCR data in the Seurat ecosystem☆20Updated last year
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆54Updated 7 months ago