42 results found Sort:
- Filter by Primary Language:
- Python (15)
- R (13)
- Jupyter Notebook (7)
- HTML (3)
- Julia (2)
- Nextflow (1)
- TeX (1)
- +
Spatial Single Cell Analysis in Python
Created
2020-08-21
820 commits to main branch, last one 21 days ago
Tools for computational pathology
Created
2019-07-31
1,385 commits to master branch, last one 2 months ago
High dimensional weighted gene co-expression network analysis
Created
2020-08-11
242 commits to dev branch, last one 18 days ago
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
Created
2023-11-05
139 commits to main branch, last one 2 days ago
DANCE: a deep learning library and benchmark platform for single-cell analysis
Created
2022-06-07
787 commits to main branch, last one 9 months ago
Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics
Created
2020-02-06
331 commits to master branch, last one about a year ago
Spatiotemporal modeling of spatial transcriptomics
Created
2021-02-22
1,769 commits to main branch, last one 25 days ago
Integrating histology and spatial transcriptomics - NeurIPS 2024
Created
2024-03-04
43 commits to main branch, last one about a month ago
SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph convolutional network
Created
2020-10-21
290 commits to master branch, last one about a year ago
Python package to perform enrichment analysis from omics data.
Created
2021-11-16
645 commits to main branch, last one 3 days ago
Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoCycler / MACSima / etc)
Created
2023-09-04
1,242 commits to main branch, last one a day ago
Haplotype-aware CNV analysis from single-cell RNA-seq
Created
2021-05-25
964 commits to main branch, last one about a month ago
Bayesian Segmentation of Spatial Transcriptomics Data
Created
2019-01-23
956 commits to master branch, last one 5 months ago
A Toolbox for Spatial Transcriptomics Analysis
Created
2021-03-12
555 commits to master branch, last one 2 months ago
Integrating GWAS and spatial transcriptomics for spatially resolved mapping of cells associated with human complex traits.
Created
2023-12-13
431 commits to main branch, last one 3 days ago
a spatial deconvolution method based on deep learning frameworks, which converts bulk transcriptomes into spatially resolved single-cell expression profiles
Created
2021-12-31
99 commits to main branch, last one 2 years ago
Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab
Created
2023-09-08
499 commits to main branch, last one 4 months ago
Code for the spatialLIBD R/Bioconductor package and shiny app
Created
2019-12-04
837 commits to devel branch, last one 15 days ago
From geospatial to spatial -omics
Created
2020-07-22
506 commits to main branch, last one 4 months ago
Spatial-Linked Alignment Tool
Created
2022-10-25
27 commits to main branch, last one 3 months ago
Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
Created
2019-02-13
446 commits to master branch, last one about a year ago
Spatial Transcriptomics human DLPFC pilot study part of the spatialLIBD project
Created
2019-12-04
214 commits to master branch, last one 10 months ago
ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method in FASTQ format.
Created
2016-07-10
883 commits to master branch, last one 2 months ago
characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular densities
Created
2018-04-26
184 commits to master branch, last one 2 years ago
"Orchestrating Spatial Transcriptomics Analysis with Bioconductor" book
Created
2020-06-08
529 commits to devel branch, last one about a month ago
Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data
Created
2022-03-29
169 commits to main branch, last one 3 months ago
spatial transcriptome, single cell
Created
2019-11-07
79 commits to master branch, last one 2 years ago
Construction of a 3D whole organism spatial atlas by joint modeling of multiple slices
Created
2022-11-17
69 commits to main branch, last one about a year ago
Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.
Created
2022-02-23
717 commits to dev branch, last one 7 days ago
Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using high definition spatial profiling"
Created
2024-05-17
29 commits to main branch, last one 29 days ago