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Trajectory functions for visualization and interpretation.

Bioconductor version: Release (3.19)

traviz provides a suite of functions to plot trajectory related objects from Bioconductor packages. It allows plotting trajectories in reduced dimension, as well as averge gene expression smoothers as a function of pseudotime. Asides from general utility functions, traviz also allows plotting trajectories estimated by Slingshot, as well as smoothers estimated by tradeSeq. Furthermore, it allows for visualization of Slingshot trajectories using ggplot2.

Author: Hector Roux de Bezieux [aut, ctb], Kelly Street [aut, ctb], Koen Van den Berge [aut, cre]

Maintainer: Koen Van den Berge <koen.vdberge at>

Citation (from within R, enter citation("traviz")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

ggplot2 + slingshot HTML R Script
traviz HTML R Script
Reference Manual PDF


biocViews GeneExpression, RNASeq, Sequencing, SingleCell, Software, Transcriptomics, Visualization
Version 1.10.0
In Bioconductor since BioC 3.14 (R-4.1) (2.5 years)
License MIT + file LICENSE
Depends R (>= 4.0)
Imports ggplot2, viridis, mgcv, SingleCellExperiment, slingshot, princurve, Biobase, methods, RColorBrewer, SummarizedExperiment, grDevices, graphics, rgl
System Requirements
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Suggests scater, dplyr, testthat (>= 3.0.0), covr, S4Vectors, rmarkdown, knitr
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Follow Installation instructions to use this package in your R session.

Source Package traviz_1.10.0.tar.gz
Windows Binary
macOS Binary (x86_64) traviz_1.10.0.tgz
macOS Binary (arm64) traviz_1.10.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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Old Source Packages for BioC 3.19 Source Archive