Changes in version 1.20.0 Bug fixes - In the shinyFlow app, include.area now defaults to FALSE Changes in version 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. Changes in version 1.15.2 New features - Initial submit to Bioconductor. Changes in version 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 Changes in version 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 Changes in version 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 url for development version on github. Active development is performed there, therefore feel free to send pull requests/feature wishes (https://github.com/federicomarini/flowcatchR/issues)! - 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" Changes in version 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 Changes in version 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 - fixed behaviour in export.Frames - typos fixed Changes in version 1.0.1 New features - Added url for development version on github. Active development is performed there, therefore feel free to send pull requests/feature wishes (https://github.com/federicomarini/flowcatchR/issues)! - 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 - 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" Other notes Changes in version 1.0.0 New features - Initial release to Bioconductor! Changes in version 0.99.4 New features - Final fixes. Accepted in the current status at Bioconductor. Changes in version 0.99.3 New features - Changes in the code to be adapted to the latest devel version of EBImage (new functions were added for the Frames class). Changes in version 0.99.2 New features - Updated/added documentation. Changes in version 0.99.1 New features - Adapted after first round of review.