single-cell-pseudotime
Cell ordering algorithm catalog
Catalogs algorithms for estimating the position of cells in a developmental trajectory from single-cell gene expression data
An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
412 stars
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62 forks
last commit: about 1 month ago
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bioinformaticspseudotime-algorithmsrna-seqsingle-cell
seandavi/awesome-single-cellRelated projects:
| Repository | Description | Stars |
|---|---|---|
 wmacnair/psupertime | Identifies genes that maintain pseudotime ordering in single-cell RNA-seq data | 38 |
 kieranrcampbell/ouija | A probabilistic framework for inferring pseudotimes from single-cell gene expression data and understanding the underlying regulatory mechanisms. | 28 |
 dpeerlab/palantir | An algorithm for aligning cells along differentiation trajectories from single cell data | 230 |
 kstreet13/bioc2020trajectories | Analyzing and comparing single-cell RNA-seq data across multiple conditions to infer cell trajectories and detect differential expression. | 25 |
 scverse/scvi-tools | Probabilistic analysis tools for single-cell omics data | 1,270 |
 irrationone/cellassign | Automated assignment of cell types in single-cell RNA-seq data based on marker genes and patient/batch effects | 197 |
 theislab/single-cell-tutorial | Provides a comprehensive tutorial and workflow for single-cell RNA-seq analysis | 1,419 |
 nasqar/seuratv3wizard | An R-based web application for guided single-cell RNA-seq data analysis and clustering | 33 |
 zjufanlab/sccatch | Automated tool for annotating cell types from single-cell RNA sequencing data based on marker genes | 219 |
 iosonofabio/singlet | Analyzes single cell RNA sequence data with quantitative phenotypes | 13 |
 qile0317/apackoftheclones | Tools for visualizing and analyzing clonal expansion in immune cell populations | 14 |
| theislab/pseudodynamics | A software framework for analyzing single-cell RNA-seq time series data to infer population dynamics. | 39 |
 timoast/sinto | Tools for analyzing aligned single-cell data from sequencing experiments | 118 |
 jw156605/slicer | An R package implementing an algorithm for inferring cell trajectories based on gene expression data | 12 |
 snakemake-workflows/single-cell-rna-seq | A workflow generator for single-cell RNA-seq data analysis | 100 |