39 results found Sort:
- Filter by Primary Language:
- R (13)
- Python (12)
- Jupyter Notebook (7)
- HTML (3)
- Julia (2)
- Nextflow (1)
- TeX (1)
- +
Spatial Single Cell Analysis in Python
Created
2020-08-21
683 commits to main branch, last one 10 days ago
Tools for computational pathology
Created
2019-07-31
1,384 commits to master branch, last one about a month ago
High dimensional weighted gene co-expression network analysis
Created
2020-08-11
234 commits to dev branch, last one 2 months ago
DANCE: a deep learning library and benchmark platform for single-cell analysis
Created
2022-06-07
787 commits to main branch, last one 5 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 10 months ago
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
Created
2023-11-05
112 commits to main branch, last one 10 days ago
Spatiotemporal modeling of spatial transcriptomics
Created
2021-02-22
1,765 commits to main branch, last one 19 days 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
HEST: Bringing Spatial Transcriptomics and Histopathology together - NeurIPS 2024 (Spotlight)
Created
2024-03-04
41 commits to main branch, last one 7 days ago
Python package to perform enrichment analysis from omics data.
Created
2021-11-16
617 commits to main branch, last one 18 days ago
Haplotype-aware CNV analysis from single-cell RNA-seq
Created
2021-05-25
961 commits to main branch, last one 16 days ago
Bayesian Segmentation of Spatial Transcriptomics Data
Created
2019-01-23
956 commits to master branch, last one about a month 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
882 commits to master branch, last one 22 days ago
A Toolbox for Spatial Transcriptomics Analysis
Created
2021-03-12
551 commits to master branch, last one 15 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 about a year ago
Code for the spatialLIBD R/Bioconductor package and shiny app
Created
2019-12-04
786 commits to devel branch, last one 5 days ago
Spatial-Linked Alignment Tool
Created
2022-10-25
27 commits to main branch, last one a day 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 about a month ago
From geospatial to spatial -omics
Created
2020-07-22
506 commits to main branch, last one 19 days ago
Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
Created
2019-02-13
446 commits to master branch, last one 11 months ago
Spatial Transcriptomics human DLPFC pilot study part of the spatialLIBD project
Created
2019-12-04
214 commits to master branch, last one 7 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
846 commits to master branch, last one 3 years ago
spatial transcriptome, single cell
Created
2019-11-07
79 commits to master branch, last one about a year 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
Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data
Created
2022-03-29
168 commits to main branch, last one about a month 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
Accurate and fast cell marker gene identification with COSG
Created
2021-06-15
18 commits to main branch, last one about a year ago
Code used to create the core and extended GBmap, including downstream analyses (cell-cell interactions, spatial transcriptomics deconvolution) and how to produce the figures.
Created
2022-08-12
23 commits to main branch, last one 2 years ago
Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.
Created
2022-02-23
694 commits to dev branch, last one 5 days ago
Multiview Intercellular SpaTial modeling framework
Created
2019-03-15
466 commits to master branch, last one 9 months ago