Palantir
Cell alignment algorithm
An algorithm for aligning cells along differentiation trajectories from single cell data
Single cell trajectory detection
230 stars
11 watching
52 forks
Language: Jupyter Notebook
last commit: 3 months ago
Linked from 1 awesome list
cell-fate-transitionsdifferentiationdiffusion-mapsdimensionality-reductionmanifold-learningmarkov-chainscrna-seqscrna-seq-analysissingle-cell-genomicstrajectory-generation
seandavi/awesome-single-cellRelated projects:
| Repository | Description | Stars |
|---|---|---|
 agitter/single-cell-pseudotime | Catalogs algorithms for estimating the position of cells in a developmental trajectory from single-cell gene expression data | 412 |
 phoenixding/scdiff | Analyzes single-cell RNA-seq data to predict cell differentiation trajectories and associated transcription factors and genes. | 28 |
 jw156605/slicer | An R package implementing an algorithm for inferring cell trajectories based on gene expression data | 12 |
 theislab/kbranches | A software package to identify regions of interest in single-cell differentiation trajectories | 5 |
 jcao89757/scina | An algorithm for assigning cell types based on prior knowledge and gene expression profiles | 61 |
 raphael-group/paste | A method for aligning and integrating spatial transcriptomics data by leveraging both gene expression similarity and spatial distances | 79 |
 gao-lab/slat | A software package for aligning single-cell spatial omics data using deep learning and graph neural networks | 83 |
 sentinal4d/cellshape | Analyzes 3D cell shape features using deep learning for cancer research | 21 |
 vanvalenlab/deepcell-tf | A deep learning library for analyzing biological images at the single-cell level | 431 |
 dimenwarper/scimitar | Analyzes single-cell measurements to infer morphing trajectories and their associated regulation. | 7 |
 peterzzq/scdart | A deep learning framework designed to integrate multi-modal single cell data from different modalities while preserving cell trajectory structures. | 10 |
 irrationone/cellassign | Automated assignment of cell types in single-cell RNA-seq data based on marker genes and patient/batch effects | 197 |
 oist/usiigaci | Automated cell tracking in phase contrast microscopy images using machine learning and computer vision techniques | 193 |
 ssarcandy/deepcoral | An implementation of a deep learning technique to align correlations in layer activations of neural networks for domain adaptation | 228 |
 bayraktarlab/cell2location | An algorithmic framework for resolving cell types in spatial transcriptomics data | 327 |