hypervolume: n-dimensional geometry
hypervolume is an R package that estimates n-dimensional hypervolumes from observed data. It can calculate shapes and volumes, perform set operations (intersection, union, etc.), detect holes, estimate probability density functions, project to geographic maps for species distribution modeling, and report functional diversity statistics. Supported geometries include kernel density estimation (hyperbox and Gaussian kernels), one-class support vector machine, and convex polytope (hulls). CRAN download. Github repository. Frequently asked questions.
venation: image analysis of leaf venation networks
venation is a set of MATLAB programs that use traced skeletons of leaf venation networks to extract several summary statistics describing the geometry and topology of the network (e.g. vein density, loopiness, areole elongation index). Other programs allow rapid estimation of vascular bundle radius. The programs can work on user-defined regions of interest and variable resolutions in either a single image or batch processing mode. Github repository.
timeordered: time ordered network analysis
leafarea: Leaf area estimation from scanned images
leafarea estimates projected leaf area from scanned images of leaves. A variety of options are available to specify image resolution, reduce image noise, and fill holes in images. Images can be processed one at a time or in batches. Versions are available for ImageJ and for MATLAB (more feature-rich). Github repository.
herbivory: image analysis of herbivorized leaves
herbivory is a MATLAB program that allows delineation of leaf boundaries by a user to infer herbivory rates. Several damage types can also be scored. Github repository
thermal_analysis: Thermal image calibration and registration
thermal_analysis is a set of MATLAB programs that can radiometrically calibrate raw FLIR infrared image data based on external measurements of relative humidity, sky temperature, object distance, etc. The programs also allow for keypoint-based automatic registration of multiple frames and extraction of time series summary statistics. Github repository.
flir_thermal_control: data logging for FLIR cameras
flir_thermal_control is a set of Python scripts and shell scripts for a Linux host (e.g. Raspberry Pi) that allow a FLIR camera to be controlled via a Gigabit ethernet interface. The code allows for automatic frame grabbing and recalibration at evenly spaced time intervals, for either linear temperature or for radiometric data. Github repository
Structure: protein visualization screensaver
Structure is a Mac OS X screensaver that visualizes protein geometry based on PDB files. Website
SophoKeys: Polytonic Greek input
SophoKeys provides an input method to type polytonic Greek on a Mac. It supports Beta Code as well as several other methods. Website.