This repository contains the CellTag data analysis R package to support clone calling and lineage reconstruction.
☆21Oct 19, 2022Updated 3 years ago
Alternatives and similar repositories for CellTagR
Users that are interested in CellTagR are comparing it to the libraries listed below
Sorting:
- ☆33Updated this week
- spSeudoMap: cell type mapping of spatial transcriptomics using unmatched single-cell RNA-seq data☆13Sep 29, 2024Updated last year
- R package for computing Association Plots☆17Nov 4, 2024Updated last year
- R package to infer multicellular programs from single-cell data using multi-omics factor analysis (MOFA)☆12Aug 17, 2023Updated 2 years ago
- R package for single-cell RNA-sequencing analysis☆15Sep 30, 2025Updated 5 months ago
- class materials for MCB517A through UW/Fred Hutch☆12Dec 5, 2019Updated 6 years ago
- Code to reproduce analyses and figures for Kamath et al., 2022☆12May 5, 2022Updated 3 years ago
- Simplified script for applying the t-SNE diff method on high parameter flow cytometry data☆11Oct 31, 2023Updated 2 years ago
- 📝 [Paper/Tutorial] T-cell repertoire annotation and motif discovery☆14Sep 15, 2025Updated 6 months ago
- This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.☆32Jun 24, 2024Updated last year
- STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data☆180Dec 18, 2021Updated 4 years ago
- Updated scripts and pipelines for processing GESTALT data at single-cell resolution☆20May 22, 2021Updated 4 years ago
- A comprehensive tool to infer TF-centred, spatial gene regulatory networks for the spatially resolved transcriptomic data.☆20Apr 27, 2025Updated 10 months ago
- A tool that allows to get UMI counts from a single cell protein assay☆87Apr 23, 2025Updated 10 months ago
- analyses of scRNAseq and spatial transcriptomics dataset of developing human pancreas at multiple gestational stages☆10Jan 30, 2023Updated 3 years ago
- Robust single cell clustering and comparison of population compositions across tissues and experimental models via similarity analysis.☆15Jul 16, 2023Updated 2 years ago
- NATMI: Network Analysis Toolkit for the Multicellular Interactions☆35Apr 13, 2021Updated 4 years ago
- CellNeighborEX: Deciphering Neighbor-Dependent Gene Expression from Spatial Transcriptomics Data☆16Mar 13, 2026Updated last week
- Python code for cross-condition label refinement in single-cell data with HiDDEN☆14Sep 21, 2024Updated last year
- Multivariate stochastic modeling for transcriptional dynamics with cell-specific latent time using SDEvelo☆19Jan 28, 2025Updated last year
- Genotype-Neighborhood Associations: A tool for identifying genetic variant associations to the abundance of cell states in single-cell d…☆16Oct 5, 2024Updated last year
- Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression☆16Jun 28, 2024Updated last year
- A robust and accurate cell type classifier for single cell RNA-seq data☆17Mar 15, 2023Updated 3 years ago
- Learning meaningful representations of genes☆21Jul 7, 2025Updated 8 months ago
- CIARA (Cluster Independent Algorithm for the identification of markers of RAre cell types) is an R package that identifies potential mar…☆16Jan 1, 2026Updated 2 months ago
- ☆20Feb 27, 2026Updated 3 weeks ago
- Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation☆22Jun 28, 2024Updated last year
- scVI extension for unspliced RNA☆16May 18, 2025Updated 10 months ago
- VoxHunt: Resolving human brain organoid heterogeneity through single-cell genomic comparison to spatial brain maps☆48Mar 1, 2024Updated 2 years ago
- ☆17Mar 11, 2024Updated 2 years ago
- Batch Effect Correction of RNA-seq Data through Sample Distance Matrix Adjustment☆18Jun 3, 2021Updated 4 years ago
- Shell wrappers for bulk and 10X single cell NGS pipelines, RNAseq, ChIPseq, ATACseq, CUT&RUN/TAG, WGS, etc.☆16Mar 12, 2026Updated last week
- A human universal senescence index to evaluate celluar senescence☆41Sep 11, 2025Updated 6 months ago
- Data-driven signal detection for unbiased scRNA-seq data analysis☆22Jan 22, 2026Updated last month
- Tutorials on using latest dynamo package☆26Dec 21, 2025Updated 3 months ago
- scPred package for cell type prediction from scRNA-seq data☆99Jan 18, 2024Updated 2 years ago
- ☆40Feb 4, 2026Updated last month
- ☆13Dec 20, 2025Updated 3 months ago
- ☆32Oct 4, 2024Updated last year