CamaraLab / scTDA
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
- 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☆69Updated 2 years ago
- ☆28Updated 2 years ago
- easy access to benchmark datasets☆50Updated 6 years ago
- Dynamic models for single-cell RNA-seq time series.☆40Updated 6 years ago
- K-nearest neighbor smoothing for high-throughput single-cell RNA-Seq data☆55Updated 2 years ago
- Quantifying experimental perturbations at single cell resolution☆107Updated 7 months 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
- Single cell network synthesis toolkit☆23Updated 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
- Git Repo for simulating Boolean Models☆34Updated 11 months ago
- ☆100Updated 2 years ago
- SCODE : an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation☆43Updated 5 years ago
- ☆25Updated 7 months ago
- Population balance analysis☆44Updated 6 years ago
- Code accompanying "Prospective identification of hematopoietic lineage choice by deep learning", Nature methods 2017, DOI:10.1038/nmeth.4…☆20Updated 2 years ago
- pCMF R package☆14Updated 6 years ago
- An interface for Nested Stochastic Block Model for single cell analysis☆32Updated last month
- Regulatory networks with Direct Information in python☆40Updated 2 years ago
- Code and manuscript files for Aaron and Karsten's deconvolution paper.☆16Updated 6 years ago
- MultiMAP for integration of single cell multi-omics☆56Updated last year
- A Library for Denoising Single-Cell Data with Random Matrix Theory☆37Updated last year
- Multi-omics studies are available here☆51Updated 2 years ago
- Computational Biology- Spring 2021☆46Updated 3 years ago
- generalized principal component analysis (GLM-PCA) implemented in python☆60Updated 4 years ago
- Nonnegative spatial factorization for multivariate count data☆58Updated last year
- Simulate single-cell RNA-SEQ data using the Splatter statistical framework but implemented in python. In addition, simulate doublet cells…☆27Updated 3 years ago
- Picasso: a methods for embedding points in 2D in a way that respects distances while fitting a user-specified shape.☆70Updated 9 months ago
- ☆99Updated 7 months ago