Inferring CNV data from single cell ATAC seq
☆25Jun 24, 2025Updated 8 months ago
Alternatives and similar repositories for CopyscAT
Users that are interested in CopyscAT are comparing it to the libraries listed below
Sorting:
- R package to detect breakpoints and assign somies to scATAC-seq data☆42Dec 1, 2025Updated 3 months ago
- Alleloscope is a method for allele-specific copy number estimation that can be applied to single cell DNA and ATAC sequencing data (separ…☆32Mar 10, 2023Updated 2 years ago
- Cell age determination by scATAC-seq and bulk-ATAC-seq☆33Jan 30, 2026Updated last month
- Code to go along with https://doi.org/10.1016/j.cell.2022.09.010☆21Mar 16, 2022Updated 3 years ago
- Clone identification from single-cell data☆62Nov 10, 2022Updated 3 years ago
- Patho-DBiT is a platform to spatially decode RNA Biology in archival FFPE tissues.☆13Aug 15, 2024Updated last year
- ☆10Oct 15, 2025Updated 4 months ago
- ☆47Apr 18, 2020Updated 5 years ago
- Multi-omic velocity inference☆116Oct 23, 2024Updated last year
- Inferring CNV from Single-Cell RNA-Seq☆651Nov 14, 2025Updated 3 months ago
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆35Jan 4, 2022Updated 4 years ago
- Accurate, deep, fast, and fully-automated scRNA-seq cell-type annotation☆14Jan 21, 2025Updated last year
- Code & utilities for the manuscript "Lineage Recording Reveals the Phylodynamics, Plasticity and Paths of Tumor Evolution"☆14May 27, 2023Updated 2 years ago
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆170Jan 26, 2024Updated 2 years ago
- pipeline for demultiplex and align both ATAC and RNA data generated in SHARE-seq☆16Jun 20, 2022Updated 3 years ago
- ☆59Sep 3, 2024Updated last year
- ☆271Oct 13, 2025Updated 4 months ago
- ☆23Jan 20, 2021Updated 5 years ago
- Notebook and examples related to La Manno and Gyllborg et al. 2016☆16Mar 4, 2017Updated 8 years ago
- CellPhy: accurate and fast probabilistic inference of single-cell phylogenies☆20Jan 8, 2026Updated last month
- ☆48Jun 24, 2022Updated 3 years ago
- Spatially constrained color profiling for visualizing single-cell resolution spatial data☆25Sep 23, 2024Updated last year
- CHISEL -- Copy-number Haplotype Inference in Single-cell by Evolutionary Links☆43Nov 13, 2024Updated last year
- Code to support: "pcaReduce: hierarchical clustering of single cell transcriptional profiles"☆20Feb 24, 2024Updated 2 years ago
- Analysis of single-cell ChIP-seq datasets : From count matrices to differential analysis☆20Jun 2, 2020Updated 5 years ago
- Tools for single-cell data processing☆132May 27, 2024Updated last year
- ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)☆447Feb 18, 2025Updated last year
- Mitochondrial Alteration Enrichment and Genome Analysis Toolkit☆24Jan 16, 2024Updated 2 years ago
- single cell analysis of treatment naive and treated human PDAC☆25May 27, 2022Updated 3 years ago
- ☆25Feb 25, 2025Updated last year
- Workflow for analysis of healthy human kidney by snRNAseq and snATACseq☆25Mar 13, 2023Updated 2 years ago
- Analysis code for "Perturbation-response genes reveal signaling footprints in cancer gene expression"☆20May 11, 2018Updated 7 years ago
- A tool for detecting somatic variants in single cell data☆216Sep 15, 2024Updated last year
- This repository contains HCA Benchmarking codes☆26Nov 11, 2019Updated 6 years ago
- fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector☆24Updated this week
- Single-cell Transcriptome and Regulome Analysis Pipeline☆302Mar 6, 2023Updated 2 years ago
- Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis☆23Aug 8, 2022Updated 3 years ago
- Trajectory Inference Based on SNP information.☆24Jun 19, 2024Updated last year
- Workflow for Sequenza, cellularity and ploidy☆26Aug 19, 2025Updated 6 months ago