dylkot / scsimLinks
Simulate single-cell RNA-SEQ data using the Splatter statistical framework but implemented in python. In addition, simulate doublet cells and cells with shared gene-expression programs.
☆27Updated 3 years ago
Alternatives and similar repositories for scsim
Users that are interested in scsim are comparing it to the libraries listed below
Sorting:
- Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.☆49Updated 8 months ago
- MultiMAP for integration of single cell multi-omics☆56Updated last year
- Regulatory networks with Direct Information in python☆40Updated 2 years ago
- Quasilinear data representations for single-cell omics data analysis☆43Updated 2 years ago
- Nonnegative spatial factorization for multivariate count data☆59Updated 2 years ago
- A quantitative framework for evaluating data structure preservation by dimensionality reduction techniques☆16Updated 4 years ago
- Companion repository to Lause, Berens & Kobak (2021): "Analytic Pearson residuals for normalization of single-cell RNA-seq UMI data", Gen…☆40Updated 3 years ago
- ☆45Updated 2 months ago
- ☆26Updated last year
- Quantifying experimental perturbations at single cell resolution☆110Updated last year
- Test genes for Spatial Variation☆14Updated 9 months ago
- PRObabilistic Simulations of ScRNA-seq Tree-like Topologies☆26Updated last year
- Code for Universal Single-Cell Matching with Unpaired Feature Sets☆21Updated 4 years ago
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆55Updated 4 months ago
- A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.☆26Updated 9 months ago
- spatial transcriptome, single cell☆70Updated 2 years ago
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆61Updated last month
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆64Updated 3 months ago
- Spatial reconstruction of dissociated single-cell data☆19Updated last year
- CAST package☆40Updated 11 months ago
- Dynamical systems methods for RNA velocity analysis☆24Updated 4 years ago
- Dynamic models for single-cell RNA-seq time series.☆40Updated 7 years ago
- A novel computational method for inferring cell-type-specific signaling networks using single-cell transcriptomics data for better charac…☆43Updated last month
- Template repository for creating novel models with scvi-tools☆20Updated 2 years ago
- ☆56Updated last year
- A python package for chromVAR☆30Updated 2 years ago
- SingleCellFusion--a tool to integrate single-cell transcriptome and epigenome data☆12Updated 3 years ago
- ☆20Updated 3 years ago
- ENHANCE: Accurate denoising of single-cell RNA-Seq data (Python implementation)☆14Updated 6 years ago
- Unsupervised cell functional annotation for single-cell RNA-Seq☆22Updated 2 years ago