Package: veloviz 1.19.0

Lyla Atta

veloviz: VeloViz: RNA-velocity informed 2D embeddings for visualizing cell state trajectories

VeloViz uses each cell’s 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.

Authors:Lyla Atta [aut, cre], Jean Fan [aut], Arpan Sahoo [aut]

veloviz_1.19.0.tar.gz
veloviz_1.19.0.zip(r-4.7)veloviz_1.19.0.zip(r-4.6)veloviz_1.19.0.zip(r-4.5)
veloviz_1.19.0.tgz(r-4.6-x86_64)veloviz_1.19.0.tgz(r-4.6-arm64)veloviz_1.19.0.tgz(r-4.5-x86_64)veloviz_1.19.0.tgz(r-4.5-arm64)
veloviz_1.19.0.tar.gz(r-4.7-arm64)veloviz_1.19.0.tar.gz(r-4.7-x86_64)veloviz_1.19.0.tar.gz(r-4.6-arm64)veloviz_1.19.0.tar.gz(r-4.6-x86_64)
veloviz_1.19.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
veloviz/json (API)
NEWS

# Install 'veloviz' in R:
install.packages('veloviz', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))
Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:
  • pancreas - Pancreas scRNA-seq data
  • vel - MERFISH velocity subset

On BioConductor:veloviz-1.19.0(bioc 3.24)veloviz-1.18.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

transcriptomicsvisualizationgeneexpressionsequencingrnaseqdimensionreductioncpp

4.00 score 6 scripts 258 downloads 9 exports 16 dependencies

Last updated from:69af4542bf. Checks:1 WARNING, 13 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksWARNING153
linux-devel-arm64OK154
linux-devel-x86_64OK175
source / vignettesOK213
linux-release-arm64OK169
linux-release-x86_64OK237
macos-release-arm64OK106
macos-release-x86_64OK299
macos-oldrel-arm64OK115
macos-oldrel-x86_64OK246
windows-develOK123
windows-releaseOK137
windows-oldrelOK120
wasm-releaseOK116

Exports:asNNGraphbuildVelovizgraphViznormalizeDepthnormalizeVarianceplotEmbeddingplotVelovizprojectedNeighborsreduceDimensions

Dependencies:clicpp11glueigraphlatticelifecyclemagrittrMatrixmgcvnlmepkgconfigRcppRcppEigenrlangRSpectravctrs

VeloViz Vignette

Lyla Atta

Rendered fromvignette.Rmdusingknitr::rmarkdownon May 24 2026.

Last update: 2021-07-14
Started: 2021-05-05