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bioc
COTAN:COexpression Tables ANalysis
Statistical and computational method to analyze the co-expression of gene pairs at single cell level. It provides the foundation for single-cell gene interactome analysis. The basic idea is studying the zero UMI counts' distribution instead of focusing on positive counts; this is done with a generalized contingency tables framework. COTAN can effectively assess the correlated or anti-correlated expression of gene pairs. It provides a numerical index related to the correlation and an approximate p-value for the associated independence test. COTAN can also evaluate whether single genes are differentially expressed, scoring them with a newly defined global differentiation index. Moreover, this approach provides ways to plot and cluster genes according to their co-expression pattern with other genes, effectively helping the study of gene interactions and becoming a new tool to identify cell-identity marker genes.
Maintained by Galfrè Silvia Giulia. Last updated 20 days ago.
systemsbiologytranscriptomicsgeneexpressionsinglecell
16 stars 6.85 score 96 scripts
symbolixau
h3r:Hexagonal Hierarchical Geospatial Indexing System
Provides access to Uber's 'H3' geospatial indexing system via 'h3lib' <https://CRAN.R-project.org/package=h3lib>. 'h3r' is designed to mimic the 'H3' Application Programming Interface (API) <https://h3geo.org/docs/api/indexing/>, so that any function in the API is also available in 'h3r'.
Maintained by David Cooley. Last updated 4 months ago.
5 stars 4.52 score 33 scripts