PascalKieslich/mousetrap: mousetrap v3.0.0

Announcements We are delighted that Dirk Wulff and Jonas Haslbeck have joined the mousetrap team! They are contributing a number of new functions, particularly for clustering and visualization. The documentation of the mousetrap package can now also be found online at http://pascalkieslich.github.io/mousetrap/ General changes to existing functions Introduction of class mousetrap for mousetrap data objects (such as mt_example). This facilitates, among other things, checking of the data class. Change of dimension order for all trajectory arrays: The old order was 1) trials, 2) variables, 3) samples. The new order is 1) trials, 2) samples, 3) variables. All functions and example data have been modified accordingly. Many reshape, aggregation, export, and plotting functions now accept a trajectory array as direct input to data. In case an analysis function adds measures to an existing data.frame, existing columns of the same name are now replaced and a warning is displayed (instead of merging the data.frames and adding generic suffixes). Arguments that were already deprecated and replaced (e.g., show_progress was replaced with verbose) have been removed. Changes in specific functions mt_align_start: function is now vectorized and allows for optionally aligning to mean start position across trials; default for save_as argument is set to use. mt_space_normalize: function is deprecated and replaced with mt_align_start_end. It offers similar functionality but is vectorized and allows for optionally aligning to mean start/end position across trials. mt_resample: now provides option to perform partial constant interpolation. Thanks to @sbrockhaus for the suggestion (cf. #7, #9). mt_derivatives: now provides option to additionally return timestamp differences. mt_measures: now optionally determines the number and duration of hovers (cf. #9), improved documentation and report of time measures (cf. #6). mt_plot: introduced facet_row and facet_col arguments for faceting. mt_plot_add_rect: internal change to avoid warning message (due to changes in ggplot2). mt_plot_riverbed: explicitly remove zero frequencies instead of relying on the alpha parameter. New functions read_mt: read MouseTracker raw data (.mt files). mt_align: general purpose function for aligning and rescaling trajectories. For specific operations, you can rely on the specialized functions mt_align_start and mt_align_start_end. mt_spatialize: re-represent each trajectory spatially so that adjacent points become equidistant to each other. mt_add_trajectory: add a new trajectory to a trajectory array. mt_bind: join two trajectory arrays. mt_count: count the number of observations for each trajectory. mt_angles: calculate movement angles for trajectories. mt_distmat: compute the distance matrix for each pair of trajectories. mt_cluster: perform trajectory clustering with a specified number of clusters. mt_cluster_k: estimate the optimal number of clusters using various methods. mt_map: map trajectories onto a predefined set of prototype trajectories (a core set is provided in mt_prototypes). Bugs fixed mt_measures: make checks for timestamps > 0 and < 0 independent. Thanks to Regina Köhler for pointing this out. mt_plot_per_trajectory: fix bug that all trajectories were plotted on each page (introduced through previous change in mt_reshape). Thanks to Bence Palfi for discovering this. create_results (internal function): Explicitly select mt_id column (instead of assuming that it is the first column - which is, e.g., often not the case in data[["data"]]); ensure for case overwrite=FALSE that function also works when multiple columns are merged and when all columns except mt_id are dropped beforehand. Removed functions read_mousetracker: removed as it is recommended to directly import the MouseTracker raw data using the new function read_mt. mt_movement_angle: removed as it is replaced with new and more general function mt_angles. mt_calculate_derivatives, mt_calculate_deviations, mt_calculate_measures: removed as they were previously deprecated and replaced with mt_derivatives, mt_deviations, mt_measures