In the shinyFlow app, include.area now defaults to FALSE
flowcatchR 1.16.0
Other notes
The project website based on pkgdown has been created and published on GitHub
Added a NEWS.md file to track changes to the package.
flowcatchR 1.14.0
New features
the engine for plotting the trajectories is now based on plotly, abandoning the older rgl-based solution
Other notes
vignette: now also based on Rmarkdown, leaving the older Rnw-pdf be
shortened example lines for better documentation
better definition of import statements for better behaviour with other packages
updated travis.yml for current setup
flowcatchR 1.4.0
New features
added details in the vignette on the dockerflow proposal, where flowcatchR is made available in preconfigured Docker containers
Bug fixes
penaltyFunctionGenerator: simmetric penalty function is now correctly computed
Other notes
added LazyData: true in the DESCRIPTION
updated travis.yml to use native R integration
vignette: improved structure, to enhance readability and usability; removed rgl hook which was not used anyway
documentation: slight updates and enhancements
flowcatchR 1.2.0
New features
addTrajectory: changed implementation in the addTrajectory function, notable gain in computing time
particles: implementation of particles() now used BiocParallel - massive gain in performances!
snap() function to allow interaction of the user with the image, to display additional information on the trajectories identified on the Frames/ParticleSet
shinyFlow() released! A Shiny App is delivered along with the package, documentation is available to guide exploration of data and parameters
Jupyter/IPython notebooks available in the installed folder of the package - provided as template for further analysis
Vignette: updated to reflect the current implementation and newest features
preprocess.Frames: extended documentation
BiocViews: added a couple of terms that fit better with current status of the package
Added integration of the repository with Travis-CI
add.contours: if image is in grayscale, use false colours to enhance detected particles
plot2d.TrajectorySet is now able to draw a grid and help backtracking points from the trajectories
Bug fixes
select.Frames: fixed behaviour in select.Frames when selecting a single frame
add.contours: corrected bug in add.contours for grayscale images, was preventing correct combining of images. now uses correctly false colours and aids identification
particles: for computing particles,added check whether dimnames is set or not. previously it raised an error, but it was kind of overkilling
fixed behaviour in export.Frames
typos fixed
Vignette: fixed typos, fixed parameter names in the preprocessing steps
read.Frames: additional check on the existence of all files
Grayscale images can now be directly preprocessed by selecting channel = “all”
flowcatchR 1.0.3
New features
addTrajectory: changed implementation in the addTrajectory function, notable gain in computing time
particles: implementation of particles() now used BiocParallel - massive gain in performances!
snap() function to allow interaction of the user with the image, to display additional information on the trajectories identified on the Frames/ParticleSet
shinyFlow() released! A Shiny App is delivered along with the package, documentation is available to guide exploration of data and parameters
Jupyter/IPython notebooks available in the installed folder of the package - provided as template for further analysis
Vignette: updated to reflect the current implementation and newest features
preprocess.Frames: extended documentation
BiocViews: added a couple of terms that fit better with current status of the package
flowcatchR 1.0.2
Bug fixes
select.Frames: fixed behaviour in select.Frames when selecting a single frame
add.contours: corrected bug in add.contours for grayscale images, was preventing correct combining of images. now uses correctly false colours and aids identification
particles: for computing particles,added check whether dimnames is set or not. previously it raised an error, but it was kind of overkilling