graphite - GRAPH Interaction from pathway Topological Environment
Graph objects from pathway topology derived from KEGG, Panther, PathBank, PharmGKB, Reactome SMPDB and WikiPathways databases.
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pathwaysthirdpartyclientgraphandnetworknetworkreactomekeggmetabolomicsbioinformaticsmirrorpathway-analysis
10.95 score 8 stars 29 dependents 216 scripts 9.4k downloadsspatialDE - R wrapper for SpatialDE
SpatialDE is a method to find spatially variable genes (SVG) from spatial transcriptomics data. This package provides wrappers to use the Python SpatialDE library in R, using reticulate and basilisk.
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softwaretranscriptomicspythonspatial-datawrapper
6.76 score 3 stars 159 scripts 463 downloadsparmigene - Parallel Mutual Information Estimation for Gene Network Reconstruction
Parallel estimation of the mutual information based on entropy estimates from k-nearest neighbors distances and algorithms for the reconstruction of gene regulatory networks (Sales et al, 2011 <doi:10.1093/bioinformatics/btr274>).
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openmp
6.14 score 7 stars 4 dependents 33 scripts 788 downloads