Katsevich-Lab / sceptre
An R package for single-cell CRISPR screen data analysis emphasizing statistical rigor, massive scalability, and ease of use.
☆26Updated last month
Alternatives and similar repositories for sceptre:
Users that are interested in sceptre are comparing it to the libraries listed below
- post-clustering differential expression test☆35Updated 5 years ago
- Code associated with MIX-seq manuscript☆14Updated 4 years ago
- Matrix factorization model for interpreting single cell gene expression in biologically heterogeneous data☆21Updated 11 months ago
- CellRegMap: A statistical framework for mapping context-specific regulatory variants using scRNA-seq☆21Updated 6 months ago
- Hierarchical classification of cells☆23Updated 7 months ago
- SIB/Scilifelab autumn school in single cell omics 2019.☆22Updated 5 years ago
- Methods to use SNPs or gene expression to classify single cell RNAseq to reference profiles☆29Updated 4 years ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆38Updated 2 months ago
- Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3☆39Updated last year
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆48Updated last week
- Repository containing all code for secondary analysis in the manuscript "On the design of CRISPR-based single cell molecular screens", Hi…☆26Updated 3 years ago
- ☆35Updated last year
- A method which leverages scRNA-seq data to achieve two goals: (1) to infer the cell types in which the disease-associated genes manifest …☆24Updated 2 years ago
- Individual level Differential Expression Analysis for Single cells☆23Updated 2 years ago
- Causal inference, differential expression, and co-expression for scRNA-seq☆18Updated 3 years ago
- GENIE3 (GEne Network Inference with Ensemble of trees) R-package☆30Updated 2 years ago
- CellR: single-cell RNA-Seq guided deconvolution of cellular composition from bulk-tissue RNA-Seq☆16Updated 3 years ago
- ConsensusTME Gene Sets and R Script☆39Updated 9 months ago
- An end-to-end computational pipeline for large Perturb-seq screens☆13Updated 2 years ago
- ☆12Updated 5 years ago
- Mosaic single cell data integration using non-overlapping features☆37Updated 2 years ago
- R package for gene selection using k-NN graphs.☆13Updated last year
- FastIntegrate integrates thousands of scRNA-seq datasets and outputs batch-corrected values for downstream analysis☆23Updated 4 months ago
- Python code for cross-condition label refinement in single-cell data with HiDDEN☆10Updated 5 months ago
- Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation☆21Updated 8 months ago
- ☆20Updated last year
- Using Bulk Gene Expression to Estimate Cell-Type-Specific Gene Expression via Deconvolution☆44Updated last year
- A R package for integrated scRNA-seq data analysis using the RPCI algorithm☆44Updated 11 months ago
- Analysis code for the TAP-seq manuscript.☆11Updated 3 years ago
- Exon-Intron Split Analysis (EISA) in R☆16Updated last month