CamaraLab / scTDALinks
An object oriented python library for topological data analysis of high-throughput single-cell RNA-seq data
☆51Updated 6 years ago
Alternatives and similar repositories for scTDA
Users that are interested in scTDA are comparing it to the libraries listed below
Sorting:
- An object oriented python library for topological data analysis of high-throughput single-cell RNA-seq data☆7Updated 7 years ago
- A collection of scripts and tools for loading, processing, and handling single cell data.☆72Updated 2 years ago
- Single-cell Hierarchical Poisson Factorization☆70Updated 2 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
- Dynamic models for single-cell RNA-seq time series.☆40Updated 6 years ago
- ☆29Updated 2 years ago
- Git Repo for simulating Boolean Models☆35Updated last year
- Computational Biology- Spring 2021☆47Updated 3 years ago
- generalized principal component analysis (GLM-PCA) implemented in python☆60Updated 4 years ago
- K-nearest neighbor smoothing for high-throughput single-cell RNA-Seq data☆55Updated 2 years ago
- Regulatory networks with Direct Information in python☆40Updated 2 years ago
- Quantifying experimental perturbations at single cell resolution☆109Updated 8 months ago
- An interface for Nested Stochastic Block Model for single cell analysis☆35Updated 3 months ago
- Code and manuscript files for Aaron and Karsten's deconvolution paper.☆16Updated 6 years ago
- Simulate single-cell RNA-SEQ data using the Splatter statistical framework but implemented in python. In addition, simulate doublet cells…☆27Updated 3 years ago
- pCMF R package☆14Updated 6 years ago
- ☆48Updated 6 years ago
- This Python package will allow you to replicate the experiments from our research on applying Optimal Transport as a similarity metric in…☆38Updated 2 years ago
- Regulatory networks with Direct Information☆16Updated 5 years ago
- This is the code release for paper Continuous State HMMs for Modeling Time Series Single Cell RNA-Seq Data☆22Updated 7 years ago
- Single cell network synthesis toolkit☆23Updated 4 years ago
- Geometry-preserving random sampling☆87Updated 7 months ago
- A Library for Denoising Single-Cell Data with Random Matrix Theory☆37Updated last year
- Mapping out the coarse-grained connectivity structures of complex manifolds.☆219Updated 5 years ago
- Human cortical cell types☆24Updated 5 years ago
- easy access to benchmark datasets☆50Updated 6 years ago
- MultiMAP for integration of single cell multi-omics☆56Updated last year
- Nonnegative spatial factorization for multivariate count data☆58Updated last year
- Python 2.7 implementation of network-based stratification (NBS) algorithm from Hofree et al (Nature Methods 2013)☆37Updated 8 months ago
- Assembles a graph manifold from time series single-cell RNAseq data☆17Updated 4 years ago