8 results found Sort:

gustaveroussy
sopa gustaveroussy
20
144
bsd-3-clause
7
Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoCycler / MACSima / etc)
pipeline snakemake spatialdata spatial-omics generalization memory-management multiplexed-imaging spatial-transcriptomics
Created 2023-09-04
882 commits to master branch, last one about a month ago
fanglu0411
sgs fanglu0411
19
126
unknown
10
SGS, is a user-friendly, collaborative and versatile browser for visualizing single-cell and spatial multiomics data.
sgs zarr schic scrna mudata scatac sceqtl anndata scmethylc multimodal single-cell spatial-omics visualization genome-browser
Created 2024-07-01
59 commits to main branch, last one 3 months ago
theMILOlab
SPATA2 theMILOlab
19
121
unknown
6
A Toolbox for Spatial Transcriptomics Analysis
data-analysis spatial-omics image-analysis spatial-transcriptomics
Created 2021-03-12
551 commits to master branch, last one 24 days ago
prabhakarlab
Banksy prabhakarlab
12
81
other
4
BANKSY: spatial clustering
spatial-omics single-cell-omics clustering-algorithm
Created 2021-05-23
271 commits to bioc branch, last one 5 months ago
wanglab-broad
ClusterMap wanglab-broad
11
43
gpl-3.0
1
ClusterMap for multi-scale clustering analysis of spatial gene expression
spatial-omics bioinformatics transcriptomics cell-segmentation in-situ-sequencing single-cell-analysis spatial-transcriptomics
Created 2021-09-29
76 commits to main branch, last one 5 months ago
scverse
napari-spatialdata scverse
17
43
bsd-3-clause
14
Interactive visualization of spatial omics data
napari napari-plugin spatial-omics visualization spatial-analysis
Created 2022-04-02
327 commits to main branch, last one 4 days ago
Lotfollahi-lab
nichecompass Lotfollahi-lab
6
39
bsd-3-clause
4
End-to-end analysis of spatial multi-omics data
deep-learning spatial-omics graph-neural-networks variational-autoencoder
Created 2022-07-15
883 commits to main branch, last one 2 months ago
ttgump
spaVAE ttgump
2
32
apache-2.0
1
Dependency-aware deep generative models for multitasking analysis of spatial genomics data
pytorch deep-learning spatial-omics gaussian-processes spatial-transcriptomics variational-autoencoder
Created 2022-11-25
92 commits to main branch, last one 5 months ago