ksimeono / macsGESTALTView external linksLinks
Code repository for macsGESTALT single cell lineage tracing analysis https://doi.org/10.1101/2020.08.11.245787
☆10May 10, 2021Updated 4 years ago
Alternatives and similar repositories for macsGESTALT
Users that are interested in macsGESTALT are comparing it to the libraries listed below
Sorting:
- Updated scripts and pipelines for processing GESTALT data at single-cell resolution☆20May 22, 2021Updated 4 years ago
- Lineage Tracing by Integrating Mutation and Transcriptomic data☆13Jun 16, 2020Updated 5 years ago
- ☆12Apr 13, 2020Updated 5 years ago
- ☆19Aug 20, 2024Updated last year
- ☆47May 4, 2024Updated last year
- Population balance analysis☆44Apr 25, 2019Updated 6 years ago
- model-based understanding of single-cell CRISPR screening☆27Dec 13, 2024Updated last year
- Landscape Single Cell Entropy☆21Aug 24, 2020Updated 5 years ago
- Global Waddington-OT☆23Mar 25, 2025Updated 10 months ago
- ☆26Aug 15, 2023Updated 2 years ago
- Downstream analysis script for sci-fate (TF-gene linkage analysis / cell linkage analysis)☆24Jan 22, 2020Updated 6 years ago
- ☆26Dec 25, 2023Updated 2 years ago
- Collection of code for the GESTALT fate mapping paper using the CRISPR/Cas9 system☆25Jan 8, 2018Updated 8 years ago
- Causal mediation analysis in R☆31Dec 12, 2020Updated 5 years ago
- Spatial Transcriptomic Analysis of OSCC samples☆28Dec 24, 2025Updated last month
- Scripts for the analysis of TT-seq and DRB/TT-seq data.☆11Mar 11, 2020Updated 5 years ago
- ☆32Jul 29, 2025Updated 6 months ago
- RILseq computational protocol☆10Apr 3, 2022Updated 3 years ago
- Reusable scripts and functions archive for the paper "Organoid single-cell genomic atlas uncovers human-specific features of brain develo…☆38Aug 2, 2021Updated 4 years ago
- A robust DE test method that accounts for the uncertainty in pseudotime inference☆39Mar 2, 2025Updated 11 months ago
- A versatile method for systematic identification of differential RNA splicing across platforms☆15Jan 15, 2026Updated 3 weeks ago
- A python port of the Single Molecule Tools software by Adam Wollman, aka. ADEMSCode.☆11Sep 30, 2021Updated 4 years ago
- ☆10Oct 24, 2024Updated last year
- Transcriptional regulatory network inference from gene expression and prior information with LASSO-StARS☆15May 3, 2022Updated 3 years ago
- Pipeline for demultiplexing and aligning both ATAC and RNA data generated in SHARE-seqV2☆16Apr 21, 2023Updated 2 years ago
- Subplex Optimization Algorithm☆11Nov 25, 2025Updated 2 months ago
- scRNA-seq analysis beyond gene annotations using transcriptionally active regions (TARs) generated from sequence alignment data☆10Jul 25, 2022Updated 3 years ago
- Step by step tutorial for CAGE analysis☆10Sep 18, 2025Updated 4 months ago
- Single-cell generalized trendmodel (scGTM): a flexible and interpretable model for gene expression along cell pseudotime. This is a Pyt…☆12Sep 26, 2023Updated 2 years ago
- GESTALT processing pipeline for barcodes captured with single-cell RNA sequencing☆13Jan 26, 2020Updated 6 years ago
- ☆11Feb 11, 2021Updated 5 years ago
- Localization of transcribed enhancers and quntification of their usage from the initiation sites of bidirectionally transcribed loci☆14Dec 19, 2024Updated last year
- This repository contains the scripts for reproducing the results presented in Costa AC, Ahamed T, Jordan D, Stephens GJ (2023) "A Markov…☆11Sep 25, 2025Updated 4 months ago
- ☆10Dec 8, 2023Updated 2 years ago
- A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction☆97Feb 5, 2026Updated last week
- 𝒫robabilistic modeling of RNA velocity ⬱☆49Feb 6, 2026Updated last week
- Python package to infer tensions and pressures from 3D microscopy images of embryos and tissues☆12Nov 4, 2025Updated 3 months ago
- ☆12Jul 25, 2019Updated 6 years ago
- Code and paper repository for the ICML paper "Learning population level diffusions with generative recurrent networks"☆11May 26, 2016Updated 9 years ago