The latest update to the image analysis and calibration toolbox
Batch QCPA v1.4
Fixed a bug where RNL ranked filtering was not applied to images prior to creating colour maps when selected.
Batch QCPA v1.3
Fixed an error which led to images being left open after processing, subsequently causing memory overload with large datasets: https://github.com/cedricvandenberg/QCPA-batch-script
BUG ALERT: Naive Bayes clustering in QCPA
Following recent reports we can confirm that when using the Naive Bayes clustering alternative to the RNL clustering, the standard deviations instead of the means were used for downstream colour pattern analysis. This bug concerns all realeses of the toolbox
micaToolbox 2.3 release
This release has a number of bug fixes, and also switches to a new LibRAW (DCRAW) version, which offers support for a large number of more recent RAW camera file formats. The functions have been tested in Linux and Windows,
Workshop announcement: Modelling animal vision using spectrophotometry and calibrated digital imaging – 29.09.2024 Melbourne (AUS) – REGISTRATION NOW OPEN!
Joint organisers: Cedric P. van den Berg, Jolyon Troscianko, Thomas E. White, Devi Stuart-Fox We are delighted to announce a one-day workshop on the use of spectrophotometry and calibrated digital imaging for modelling animal vision. The workshop will briefly introduce
Quick fixes to errors creating or loading .mspec images in v2.1.1 (this was fixed in v2.2.2) + 2023 libRaw update for Windows users
This was fixed in the upgrade to v2.2.2, but here’s how: Issues for users of v2.1.1 with opening or creating .mspec files can be explained by an error in the ‘DCRAW_import.ijm’ script (Plugins -> micaToolbox -> tools). Replace lines 19
New Pre-Print: Automated workflows using Quantitative Colour Pattern Analysis (QCPA): A guide to batch processing and downstream data analysis
A GUI-mediated, modular approach to automating QCPA. Incl. worked examples, and a detailed manual (R scripts are in the works): https://www.biorxiv.org/content/10.1101/2023.02.02.526788v1
New: A user’s perspective & guide on colour & granularity analysis using the MICA toolbox – Studying colours and patterns in biology using digital photography
Michal Šulc describes how he came across calibrated digital photography and how the MICA toolbox helped him investigate animal colouration. His article provides a step-by-step walkthrough of his use of granularity and colour analyses and portraits the perspective of an
New: Guide & scripts for semi-automated camera calibration
Thanks to the amazing work of and collaboration with Dr Sam Powell from UQ’s sensory ecology lab, we are proud to present a detailed guide on how to calibrate a camera with a monochromator. The guide provides a detailed description
micaToolbox v2.2 release
This update mostly contains really major changes under the hood, but also a new image alignment feature: Switch to LibRAW from DCRAW, meaning it’s more future-proof and works with pretty much all the latest digital cameras. Affine align: this is