Last data update: 2014.03.03

ggcyto

Package: ggcyto
Type: Package
Title: Visualize Cytometry data with ggplot
Version: 1.0.5
Date: 2015-11-02
Author: Mike Jiang
Maintainer: Mike Jiang <wjiang2@fhcrc.org>
Description: With the dedicated fority method implemented for flowSet,
ncdfFlowSet and GatingSet classes, both raw and gated flow cytometry data
can be plotted directly with ggplot. ggcyto wrapper and some customed
layers also make it easy to add gates and population statistics to the
plot.
VignetteBuilder: knitr
Depends: methods, ggplot2 (>= 2.0.0), flowCore, ncdfFlow (>= 2.17.1),
flowWorkspace (>= 3.17.24)
Imports: plyr, scales, data.table, RColorBrewer, gridExtra
Suggests: testthat, flowWorkspaceData, knitr, rmarkdown, flowStats,
openCyto, flowViz
License: Artistic-2.0
URL: https://github.com/RGLab/ggcyto/issues
biocViews: FlowCytometry, CellBasedAssays, Infrastructure,
Visualization
Collate: 'AllClasses.R' 'autoplot.R' 'axis_inverse_trans.R'
'compute_stats.R' 'fortify.R' 'fortify_fs.R' 'geom_gate.R'
'geom_hvline.R' 'geom_stats.R' 'getFlowFrame.R' 'ggcyto.R'
'ggcyto_GatingLayout.R' 'ggcyto_GatingSet.R' 'ggcyto_flowSet.R'
'labs.R' 'ggcyto_par.R' 'scales_flowJo_biexp.R'
'scales_flowJo_fasinh.R' 'scales_logicle.R' 'stat_position.R'
'utility.R'
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-05-19 05:53:43 UTC; biocbuild

● BiocViews: CellBasedAssays, FlowCytometry, Infrastructure, Visualization
41 images, 33 functions, 0 datasets
● Reverse Depends: 0

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'ggcyto' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'ggcyto'
    finding HTML links ... done
    as.ggplot                               html  
    autoplot                                html  
    axis_x_inverse_trans                    html  
    compute_stats                           html  
    fortify.ellipsoidGate                   html  
    fortify.filterList                      html  
    fortify.flowSet                         html  
    fortify.polygonGate                     html  
    fortify.rectangleGate                   html  
    fortify_fs                              html  
    geom_gate                               html  
    geom_hvline                             html  
    finding level-2 HTML links ... done

    geom_stats                              html  
    getFlowFrame                            html  
    ggcyto.GatingSet                        html  
    ggcyto                                  html  
    ggcyto.flowSet                          html  
    ggcyto_GatingSet_add                    html  
    ggcyto_flowSet_add                      html  
    ggcyto_par_default                      html  
    ggcyto_par_set                          html  
    is.ggcyto                               html  
    is.ggcyto_flowSet                       html  
    is.ggcyto_par                           html  
    labs_cyto                               html  
    marginalFilter                          html  
Rd warning: /tmp/RtmpeWZ1XO/R.INSTALL325e220292cd/ggcyto/man/marginalFilter.Rd:14: missing file link 'boundaryFilter'
    plus-.ggcyto_GatingLayout               html  
    print.ggcyto                            html  
    print.ggcyto_GatingLayout               html  
    scale_x_flowJo_biexp                    html  
    scale_x_flowJo_fasinh                   html  
    scale_x_logicle                         html  
    stat_position                           html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (ggcyto)
Making 'packages.html' ... done