CamaraLab / scTDA
An object oriented python library for topological data analysis of high-throughput single-cell RNA-seq data
☆51Updated 6 years ago
Related projects ⓘ
Alternatives and complementary repositories for scTDA
- A collection of scripts and tools for loading, processing, and handling single cell data.☆72Updated last year
- An object oriented python library for topological data analysis of high-throughput single-cell RNA-seq data☆7Updated 7 years ago
- Single-cell Hierarchical Poisson Factorization☆66Updated 2 years ago
- ☆28Updated last year
- Git Repo for simulating Boolean Models☆33Updated 5 months ago
- This Python package will allow you to replicate the experiments from our research on applying Optimal Transport as a similarity metric in…☆37Updated last year
- easy access to benchmark datasets☆50Updated 6 years ago
- Companion repository to Lause, Berens & Kobak (2021): "Analytic Pearson residuals for normalization of single-cell RNA-seq UMI data", Gen…☆41Updated 2 years ago
- An interpretable simulator that generates realistic single-cell gene expression count data with gene correlations recapitulated☆24Updated 2 weeks ago
- Dynamic models for single-cell RNA-seq time series.☆39Updated 6 years ago
- Quantifying experimental perturbations at single cell resolution☆105Updated last month
- Picasso: a methods for embedding points in 2D in a way that respects distances while fitting a user-specified shape.☆69Updated 4 months ago
- Code and manuscript files for Aaron and Karsten's deconvolution paper.☆16Updated 6 years ago
- ☆97Updated last year
- Python client for the OmniPath web service☆39Updated 5 months ago
- Single cell network synthesis toolkit☆23Updated 3 years ago
- An interface for Nested Stochastic Block Model for single cell analysis☆32Updated 2 months ago
- A simulator for single-cell expression data guided by gene regulatory networks☆55Updated 6 months ago
- K-nearest neighbor smoothing for high-throughput single-cell RNA-Seq data☆50Updated 2 years ago
- Creating multi-resolution embeddings and clusters from high dimensional data☆48Updated last month
- Unified knowledge-driven network inference from omics data☆25Updated last week
- Single-cell exploratory data analysis for RNA-Seq☆39Updated 3 years ago
- MultiMAP for integration of single cell multi-omics☆53Updated last year
- generalized principal component analysis (GLM-PCA) implemented in python☆57Updated 3 years ago
- Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.☆44Updated 4 months ago
- ☆48Updated 5 years ago
- SCODE : an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation☆43Updated 4 years ago
- A set of tools supporting the development, execution, and benchmarking of trajectory inference methods. 🌍☆72Updated 3 years ago
- Global Waddington-OT☆21Updated 3 months ago
- Population balance analysis☆44Updated 5 years ago