R-based Xenium Spatial Analysis Toolkit to assess gene expression gradients
☆31May 1, 2025Updated 10 months ago
Alternatives and similar repositories for XeniumSpatialAnalysis
Users that are interested in XeniumSpatialAnalysis are comparing it to the libraries listed below
Sorting:
- Interoperability between SpatialData and the Xenium Explorer☆25Jul 31, 2024Updated last year
- Single Cell Pretrained Regulatory network INference from Transcripts☆11Sep 17, 2024Updated last year
- ☆13Jan 2, 2024Updated 2 years ago
- ☆15Sep 16, 2023Updated 2 years ago
- Scripts and datasets to reproduce the experiment of the paper "Exploring non-coding RNA functions with deep learning tools"☆16Mar 24, 2021Updated 4 years ago
- ☆15Aug 17, 2023Updated 2 years ago
- Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.☆17Sep 19, 2025Updated 5 months ago
- ☆27Jan 27, 2026Updated last month
- ☆25Feb 20, 2025Updated last year
- Genearlized mapping scripts for RNA-seq and Patch-seq data☆17Sep 29, 2025Updated 5 months ago
- ☆21Mar 22, 2023Updated 2 years ago
- List of QuPath scripts for alignment and stain deconvolution of whole-slide histology images☆27Dec 5, 2022Updated 3 years ago
- Code for the BRAIN Initiative Cell Census Network (BICCN) - RF1 Tilgner☆21May 1, 2024Updated last year
- ☆20Sep 8, 2023Updated 2 years ago
- Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022☆54Jun 8, 2022Updated 3 years ago
- This repo is not maintained anymore, please refer to: https://github.com/rnacentre/BrainCellAtlas_reproducibility.☆19Sep 24, 2024Updated last year
- Code companion to the publication "High resolution mapping of the breast cancer tumor microenvironment using integrated single cell, spat…☆30Nov 30, 2023Updated 2 years ago
- This repository contains HCA Benchmarking codes☆26Nov 11, 2019Updated 6 years ago
- Matrix factorization model for interpreting single cell gene expression in biologically heterogeneous data☆22Mar 25, 2024Updated last year
- Code used to benchmark Xenium☆77Jun 30, 2024Updated last year
- Probabilistic cell segmentation for in situ spatial transcriptomics☆151Updated this week
- Imperial College London / Graduate School / Data Science / Data Exploration & Visualisation☆10Apr 17, 2024Updated last year
- Interactive and integrated analysis of multiplexed tissue microarrays☆14Feb 23, 2026Updated last week
- Scripts and files for the annual Short Read Analysis Workshop☆12Jul 21, 2025Updated 7 months ago
- MutSig2CV from Lawrence et al. 2014☆33Aug 18, 2020Updated 5 years ago
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆35Jan 4, 2022Updated 4 years ago
- An R package performing object conversion from ArchRProject (ArchR) to Signac SeuratObject (Signac)☆37Aug 22, 2024Updated last year
- ☆35Oct 22, 2025Updated 4 months ago
- Unified access to several second-generation deconvolution methods☆95Jan 5, 2026Updated last month
- R package for WebGestalt☆38Dec 5, 2025Updated 2 months ago
- iterative clustering pipeline of big single cell datasets.☆36Sep 5, 2025Updated 5 months ago
- Copenhagen brain entropy toolbox - a set of matlab tools to compute entropy measures in neuroimaging data☆10Jan 7, 2025Updated last year
- 用每个窗口的read数作为特征、胎儿浓度作为标签，训练神经网络模型；训练完成的神经网络模型可用于NIPT胎儿浓度的预测☆11Jun 10, 2022Updated 3 years ago
- Ressources for Boinformatics Trainings☆12Nov 20, 2023Updated 2 years ago
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆86Jun 7, 2022Updated 3 years ago
- inferring cell-cell communication from scRNA-seq of ligand-receptor☆85Oct 6, 2023Updated 2 years ago
- GWAS gold standards repository☆40Nov 23, 2023Updated 2 years ago
- Single cell RNA-seq analysis bundle☆37Sep 13, 2019Updated 6 years ago
- apa: research platform for the study of alternative polyadenylation, expressRNA.org☆12Sep 2, 2021Updated 4 years ago