Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
pypi.org "spatial-transcriptomics" keyword
scslat 0.2.1
A graph deep learning based tool to align single cell spatial omics data2 versions - Latest release: about 1 year ago - 25 downloads last month - 65 stars on GitHub - 1 maintainer
sdeper 1.3.0
Spatial Deconvolution method with Platform Effect Removal9 versions - Latest release: about 1 month ago - 243 downloads last month - 1 stars on GitHub - 1 maintainer
muse-sc 0.0.8
MUSE is a deep learning approach characterizing tissue composition through combined analysis of m...8 versions - Latest release: almost 4 years ago - 1 dependent repositories - 72 downloads last month - 27 stars on GitHub - 1 maintainer
pathml 2.1.1
Tools for computational pathology15 versions - Latest release: about 1 year ago - 1 dependent repositories - 221 downloads last month - 368 stars on GitHub - 2 maintainers
openst 0.1.2
The computational pipeline for the Open-ST method.10 versions - Latest release: about 1 month ago - 85 downloads last month - 25 stars on GitHub - 2 maintainers
Top 9.8% on pypi.org
7 versions - Latest release: about 1 year ago - 1 dependent repositories - 389 downloads last month - 178 stars on GitHub - 1 maintainer
spagcn 1.2.7
SpaGCN: Integrating gene expression and histology to identify spatial domains and spatially varia...7 versions - Latest release: about 1 year ago - 1 dependent repositories - 389 downloads last month - 178 stars on GitHub - 1 maintainer
napari-sc3d-viewer 1.1.0
A plugin to visualize 3D single cell omics5 versions - Latest release: 11 months ago - 24 downloads last month - 18 stars on GitHub - 1 maintainer
effidict 0.0.7
Fast Python package providing enhanced dictionary-like data structures with advanced caching capa...9 versions - Latest release: 25 days ago - 305 downloads last month - 12 stars on GitHub - 1 maintainer
cosg 1.0.1
Accurate and fast cell marker gene identification with COSG1 version - Latest release: almost 3 years ago - 2 dependent packages - 1 dependent repositories - 84 downloads last month - 35 stars on GitHub - 1 maintainer
spatialcorr 1.2.0
SpatialCorr3 versions - Latest release: over 1 year ago - 1 dependent repositories - 26 downloads last month - 10 stars on GitHub - 2 maintainers
singlecellhaystack 0.0.5
A Python implementation of singleCellHaystack.5 versions - Latest release: 11 months ago - 35 downloads last month - 8 stars on GitHub - 1 maintainer
spatialcorr-sim 0.0.1
SpatialCorr2 versions - Latest release: over 2 years ago - 1 dependent repositories - 11 downloads last month - 3 stars on GitHub - 2 maintainers
tumoroscope-pymc 0.1.0
'Tumoroscope' model built with PyMC.1 version - Latest release: over 1 year ago - 17 downloads last month - 1 stars on GitHub - 1 maintainer
holonet 0.1.0
Decoding functional cell–cell communication events by multi-view graph learning on spatial transc...6 versions - Latest release: over 1 year ago - 1 dependent repositories - 26 downloads last month - 17 stars on GitHub - 1 maintainer
Top 6.1% on pypi.org
11 versions - Latest release: 4 months ago - 11 dependent packages - 2 dependent repositories - 5.33 thousand downloads last month - 141 stars on GitHub - 1 maintainer
decoupler 1.6.0
Ensemble of methods to infer biological activities from omics data11 versions - Latest release: 4 months ago - 11 dependent packages - 2 dependent repositories - 5.33 thousand downloads last month - 141 stars on GitHub - 1 maintainer
Top 3.2% on pypi.org
14 versions - Latest release: 4 months ago - 43 dependent packages - 23 dependent repositories - 6.66 thousand downloads last month - 397 stars on GitHub - 3 maintainers
squidpy 1.4.1
Spatial Single Cell Analysis in Python14 versions - Latest release: 4 months ago - 43 dependent packages - 23 dependent repositories - 6.66 thousand downloads last month - 397 stars on GitHub - 3 maintainers
spatialdm 0.2.0
SpatialDM: Spatial co-expression Detected by bivariate Moran9 versions - Latest release: about 1 month ago - 1 dependent repositories - 111 downloads last month - 19 stars on GitHub - 1 maintainer
cellsnap 0.0.4
A package for enhancing single-cell population delineation by integrating cross-domain information.3 versions - Latest release: 2 months ago - 20 downloads last month - 2 stars on GitHub - 1 maintainer
ccsf 1.0.8
Leveraging cell-cell similarity from gene expression data for high-performance spatial and tempor...6 versions - Latest release: 10 months ago - 53 downloads last month - 0 stars on GitHub - 1 maintainer
sopa 1.0.12
Spatial-omics pipeline and analysis17 versions - Latest release: 25 days ago - 475 downloads last month - 71 stars on GitHub - 1 maintainer
spateo-release 1.0.2
Spateo: multidimensional spatiotemporal modeling of single-cell spatial transcriptomics3 versions - Latest release: over 1 year ago - 1 dependent package - 1 dependent repositories - 155 downloads last month - 146 stars on GitHub - 1 maintainer
oligo-designer-toolsuite 0.1.3
Oligo designer toolsuite4 versions - Latest release: almost 2 years ago - 1 dependent package - 29 downloads last month - 12 stars on GitHub - 2 maintainers
oligo-designer-toolsuite-ai-filters 0.0.2
AI plug-ins for the Oligo Designer Toolsuite package3 versions - Latest release: about 1 month ago - 405 downloads last month - 12 stars on GitHub - 2 maintainers
scmags 1.5
Single Cell Marker Gene Selection Tool For Spatial Trancriptomics1 version - Latest release: over 2 years ago - 1 dependent repositories - 18 downloads last month - 7 stars on GitHub - 1 maintainer
stitch3d 1.0.3
A computational method for tissue 3D reconstruction by joint modeling of multiple spatial transcr...3 versions - Latest release: 11 months ago - 18 downloads last month - 34 stars on GitHub - 1 maintainer
pciseq 0.0.61
Probabilistic cell typing for spatial transcriptomics62 versions - Latest release: 2 months ago - 1 dependent repositories - 284 downloads last month - 22 stars on GitHub - 1 maintainer
splotch-st 0.1.1a0
Splotch is a hierarchical generative probabilistic model for analyzing Spatial Transcriptomics (S...1 version - Latest release: 6 months ago - 11 downloads last month - 17 stars on GitHub - 1 maintainer
chrysalis-st 0.2.0
Powerful and lightweight package to identify tissue compartments in spatial transcriptomics datas...3 versions - Latest release: 5 months ago - 36 downloads last month - 14 stars on GitHub - 1 maintainer
teslaforst 1.2.2
TESLA: Deciphering tumor ecosystems at super-resolution from spatial transcriptomics5 versions - Latest release: over 2 years ago - 1 dependent repositories - 76 downloads last month - 35 stars on GitHub - 1 maintainer
pydance 1.0.1
Deep Learning for Single-cell Analysis4 versions - Latest release: 6 months ago - 1 dependent package - 1 dependent repositories - 107 downloads last month - 281 stars on GitHub - 2 maintainers
transpa 0.1.1
Translation-based imputation and cell type deconvolution1 version - Latest release: 11 months ago - 1 dependent repositories - 26 downloads last month - 3 stars on GitHub - 1 maintainer
cvae-glrm 1.0.5 removed
Conditional Variational AutoEncoder - Graph Laplacian Regularized Model6 versions - Latest release: over 1 year ago - 183 downloads last month - 0 stars on GitHub - 1 maintainer
Related Keywords
bioinformatics
12
python
8
single-cell
7
deep-learning
5
oligo-design
3
probe-design
3
single-cell-rna-seq
3
computational-biology
3
transcriptomics
3
machine-learning
3
data-science
3
single-cell-analysis
3
cell-type-deconvolution
2
3d-reconstruction
2
image-analysis
2
cell-cell-communication
2
single-cell-genomics
2
gene-expression
2
graph-neural-networks
2
spatial-omics
2
data-visualization
2
clustering
2
spatial transcriptomics
2
Visium
1
Ligand-recptor interaction
1
stereo-seq
1
ligand-receptor-interaction
1
spatialdata
1
snakemake
1
pipeline
1
multiplexed-imaging
1
memory-management
1
generalization
1
spatial-correlation
1
convolutional-neural-networks
1
trajectory-prediction
1
trajectory-analysis
1
principal-component-analysis
1
dimensionality-reduction
1
data-analysis
1
graph-convolutional-networks
1
imputation
1
single-cell-rna-sequencing
1
multimodality
1
dance
1
benchmark
1
Graph Neural Networks
1
Deep Learning
1
Single-cell Biology
1
tumor-microenvironment
1
super-resolution
1
visualization
1
probabilistic-graphical-models
1
generative-model
1
neuroscience
1
oligo design
1
probe design
1
oligo nucleotides
1
probes
1
cell-segmentation
1
spatiotemporal
1
osmFISH
1
HDST-seq
1
DBiT-seq
1
slide-seq
1
MERFISH
1
seqFish
1
Spatial association
1
spatially-variable-genes
1
spatial-domains
1
graph-convolutional-network
1
omics
1
research
1
pytorch
1
pathology
1
pathml
1
microscopy
1
histopathology
1
fluorescence-microscopy-imaging
1
digital-pathology
1
computational-pathology
1
biomedical-image-processing
1
tensorflow
1
single-cell-ananlysis
1
multi-modal-analysis
1
data-integration
1
deep learning
1
single-cell analysis
1
spatial-data
1
graph-neural-network
1
Spatial transcriptomics
1
squidpy
1
spatial-analysis
1
spatial data analysis
1
image analysis
1
bio-informatics
1
numba
1
enrichment-analysis
1
enrichment
1
hacktoberfest
1