JEFworks-Lab/CRAWDAD

Cell-type Relationship Analysis Workflow Done Across Distances

Language: R - Size: 946 MB - Last synced: about 2 hours ago - Pushed: about 4 hours ago - Stars: 12 - Forks: 1

prabhakarlab/Banksy

BANKSY: spatial clustering

Language: R - Size: 595 MB - Last synced: about 13 hours ago - Pushed: 1 day ago - Stars: 45 - Forks: 10

JEFworks-Lab/SEraster

Spatial Experiments raster - a rasterization preprocessing framework for scalable spatial omics data analysis

Language: R - Size: 20.6 MB - Last synced: about 20 hours ago - Pushed: 1 day ago - Stars: 4 - Forks: 1

gustaveroussy/sopa

Technology-invariant pipeline for spatial-omics analysis (Xenium / MERSCOPE / CosMx / PhenoCycler / MACSima / Hyperion) that scales to millions of cells

Language: Python - Size: 13.5 MB - Last synced: about 12 hours ago - Pushed: 1 day ago - Stars: 67 - Forks: 7

scverse/napari-spatialdata

Interactive visualization of spatial omics data

Language: Python - Size: 25.7 MB - Last synced: 9 days ago - Pushed: 9 days ago - Stars: 31 - Forks: 10

ys-zong/conST

conST: an interpretable multi-modal contrastive learning framework for spatial transcriptomics

Language: Python - Size: 5.94 MB - Last synced: 3 days ago - Pushed: 3 months ago - Stars: 18 - Forks: 4

quentinblampey/spatialdata_xenium_explorer

Converting any SpatialData object into files that can be open by the Xenium Explorer

Language: Python - Size: 38.6 MB - Last synced: 23 days ago - Pushed: 24 days ago - Stars: 9 - Forks: 0

Lotfollahi-lab/nichecompass

End-to-end analysis of spatial multi-omics data

Language: Python - Size: 1.45 GB - Last synced: 21 days ago - Pushed: about 1 month ago - Stars: 24 - Forks: 4

yezhenqing/spatial-live

A Lightweight & Versatile Visualization Tool for Spatial-Omics Data

Language: TypeScript - Size: 233 MB - Last synced: 22 days ago - Pushed: 5 months ago - Stars: 7 - Forks: 0

Mr-Milk/SpatialTis

Spatial analysis toolkit for single cell multiplexed tissue data

Language: Python - Size: 157 MB - Last synced: 14 days ago - Pushed: 15 days ago - Stars: 29 - Forks: 1

wanglab-broad/ClusterMap

ClusterMap for multi-scale clustering analysis of spatial gene expression

Language: Jupyter Notebook - Size: 170 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 37 - Forks: 11

boyiguo1/escheR

R package to visualize colocalization for single cell & spatially-resolved genomics data

Language: R - Size: 101 MB - Last synced: 8 days ago - Pushed: 4 months ago - Stars: 6 - Forks: 2

LiuLab-Bioelectronics-Harvard/ClusterMap

ClusterMap for multi-scale clustering analysis of spatial gene expression

Language: Jupyter Notebook - Size: 300 MB - Last synced: 5 months ago - Pushed: about 2 years ago - Stars: 6 - Forks: 2

ZJUFanLab/SpaTrio

Language: Python - Size: 74.5 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 4 - Forks: 1

ttgump/spaVAE

Dependency-aware deep generative models for multitasking analysis of spatial genomics data

Language: Jupyter Notebook - Size: 22.1 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 5 - Forks: 0

annkamsk/mvae

Multimodal Variational Autoencoder dedicated to omics data integration

Language: Jupyter Notebook - Size: 544 MB - Last synced: 11 months ago - Pushed: 11 months ago - Stars: 0 - Forks: 0