PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.
☆547Mar 4, 2026Updated 2 months ago
Alternatives and similar repositories for PHATE
Users that are interested in PHATE are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological …☆381Oct 3, 2024Updated last year
- A collection of scripts and tools for loading, processing, and handling single cell data.☆77Sep 22, 2025Updated 7 months ago
- PHATE dimensionality reduction method implemented in R☆83Feb 11, 2021Updated 5 years ago
- Creating multi-resolution embeddings and clusters from high dimensional data☆58Sep 27, 2024Updated last year
- Quantifying experimental perturbations at single cell resolution☆114Sep 27, 2024Updated last year
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Single-cell RNA-seq Gene Expression Recovery☆114Nov 28, 2024Updated last year
- Reference mapping for single-cell genomics☆404Mar 21, 2026Updated 2 months ago
- ☆101Oct 1, 2024Updated last year
- Mapping out the coarse-grained connectivity structures of complex manifolds.☆242May 23, 2020Updated 5 years ago
- Deep probabilistic analysis of single-cell and spatial omics data☆1,623May 14, 2026Updated last week
- CellRank: dynamics from multi-view single-cell data☆449May 4, 2026Updated 2 weeks ago
- Single-cell analysis in Python. Scales to >100M cells.☆2,452May 13, 2026Updated last week
- RNA Velocity generalized through dynamical modeling☆499Feb 25, 2026Updated 2 months ago
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆495Apr 23, 2026Updated 3 weeks ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- ☆362Dec 9, 2021Updated 4 years ago
- Calculation of distance metrics for matrices☆26Mar 1, 2019Updated 7 years ago
- R package for the joint analysis of multiple single-cell RNA-seq datasets☆225Apr 26, 2026Updated 3 weeks ago
- RNA velocity estimation in R☆197Sep 14, 2023Updated 2 years ago
- Inferring, interpreting and visualising trajectories using a streamlined set of packages 🦕☆185Jun 24, 2021Updated 4 years ago
- Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq an…☆1,566Dec 11, 2022Updated 3 years ago
- Multi-Omics Factor Analysis☆266Sep 30, 2020Updated 5 years ago
- R package for integrating and analyzing multiple single-cell datasets☆429Feb 4, 2026Updated 3 months ago
- scRNAseq integration with triplet neural networks☆41Feb 2, 2026Updated 3 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.☆3,735May 2, 2026Updated 2 weeks ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆606Jun 26, 2025Updated 10 months ago
- Deep count autoencoder for denoising scRNA-seq data☆271Mar 21, 2024Updated 2 years ago
- Batch balanced KNN☆178Oct 11, 2023Updated 2 years ago
- Inferring CNV from Single-Cell RNA-Seq☆666Nov 14, 2025Updated 6 months ago
- Signature Analysis and Visualization for Single-Cell RNA-seq☆179Jun 10, 2024Updated last year
- TRAjectory-based Differential Expression analysis for SEQuencing data☆295Jun 17, 2025Updated 11 months ago
- Automated, probabilistic assignment of cell types in scRNA-seq data☆213Jan 9, 2023Updated 3 years ago
- Tools for building and manipulating graphs in Python☆46Dec 18, 2025Updated 5 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆327Nov 1, 2022Updated 3 years ago
- Single cell trajectory detection☆311Apr 21, 2026Updated last month
- An interactive explorer for single-cell transcriptomics data☆767May 9, 2026Updated last week
- ☆452May 5, 2026Updated 2 weeks ago
- This is the alpha version of the CellOracle package☆453Apr 30, 2026Updated 3 weeks ago
- Tools and methods for analysis of single cell assay data in R☆263Oct 17, 2025Updated 7 months ago
- R package for modeling single cell UMI expression data using regularized negative binomial regression☆261Jan 10, 2026Updated 4 months ago