This is the released version of veloviz; for the devel version, see veloviz.
VeloViz: RNA-velocity informed 2D embeddings for visualizing cell state trajectoriesBioconductor version: Release (3.21)
VeloViz uses each cellâs current observed and predicted future transcriptional states inferred from RNA velocity analysis to build a nearest neighbor graph between cells in the population. Edges are then pruned based on a cosine correlation threshold and/or a distance threshold and the resulting graph is visualized using a force-directed graph layout algorithm. VeloViz can help ensure that relationships between cell states are reflected in the 2D embedding, allowing for more reliable representation of underlying cellular trajectories.
Author: Lyla Atta [aut, cre] ORCID: 0000-0002-6113-0082 , Jean Fan [aut] ORCID: 0000-0002-0212-5451 , Arpan Sahoo [aut] ORCID: 0000-0002-0325-2073
Maintainer: Lyla Atta <lylaatta at jhmi.edu>
Citation (from within R, entercitation("veloviz")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("veloviz")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("veloviz")Follow Installation instructions to use this package in your R session.
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