Single cell trajectory detection
☆298Feb 14, 2026Updated last month
Alternatives and similar repositories for Palantir
Users that are interested in Palantir are comparing it to the libraries listed below
Sorting:
- CellRank: dynamics from multi-view single-cell data☆433Mar 9, 2026Updated last week
- R package implementation of Milo for testing for differential abundance in KNN graphs☆423Sep 4, 2025Updated 6 months ago
- This is the alpha version of the CellOracle package☆429Feb 3, 2026Updated last month
- Tools and methods for analysis of single cell assay data in R☆261Oct 17, 2025Updated 5 months ago
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆181Mar 27, 2025Updated 11 months ago
- trajectory inference☆107Jan 27, 2025Updated last year
- STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data☆180Dec 18, 2021Updated 4 years ago
- NicheNet: predict active ligand-target links between interacting cells☆630Nov 12, 2025Updated 4 months ago
- Reference mapping for single-cell genomics☆400Dec 2, 2025Updated 3 months ago
- MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological …☆379Oct 3, 2024Updated last year
- Functions for identifying and characterizing continuous developmental trajectories in single-cell data.☆326Apr 23, 2024Updated last year
- Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.☆183Updated this week
- Deep probabilistic analysis of single-cell and spatial omics data☆1,585Updated this week
- RNA Velocity generalized through dynamical modeling☆494Feb 25, 2026Updated 3 weeks ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆585Jun 26, 2025Updated 8 months ago
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆488Updated this week
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆470Jun 6, 2025Updated 9 months ago
- A package to help convert different single-cell data formats to each other☆460Feb 20, 2026Updated last month
- Benchmarking analysis of data integration tools☆408Sep 17, 2025Updated 6 months ago
- A Bayesian model for compositional single-cell data analysis☆193Jan 13, 2026Updated 2 months ago
- URD - Reconstruction of Branching Developmental Trajectories☆126Jun 29, 2021Updated 4 years ago
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆419Aug 22, 2025Updated 7 months ago
- Panoramic stitching of single cell data☆297Jul 14, 2025Updated 8 months ago
- Publication Page for MPAL Paper 2019☆84Jun 25, 2020Updated 5 years ago
- Methods for detecting doublets in single-cell sequencing data☆233Feb 12, 2026Updated last month
- ☆41Jan 12, 2026Updated 2 months ago
- TRAjectory-based Differential Expression analysis for SEQuencing data☆291Jun 17, 2025Updated 9 months ago
- Inferring, interpreting and visualising trajectories using a streamlined set of packages 🦕☆185Jun 24, 2021Updated 4 years ago
- Metacell - Single-cell mRNA Analysis☆120Updated this week
- AUCell: score single cells with gene regulatory networks☆189Mar 9, 2024Updated 2 years ago
- R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets☆246Mar 8, 2026Updated 2 weeks ago
- Convert between AnnData and SingleCellExperiment☆147Updated this week
- Single-Cell Genotyping Tool☆216Oct 2, 2023Updated 2 years ago
- Unsupervised Inference of Developmental Directions for Single Cells☆23Jan 12, 2024Updated 2 years ago
- Interpretation of cell states using reference single-cell maps☆313Dec 19, 2025Updated 3 months ago
- CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.☆227Updated this week
- R package for the joint analysis of multiple single-cell RNA-seq datasets☆220Mar 9, 2026Updated last week
- ☆361Dec 9, 2021Updated 4 years ago
- muon is a multimodal omics Python framework☆264Jan 19, 2026Updated 2 months ago