v1.0.1 initial release MIT License

hyPIRana

Analysis software development for IR-PiFM / PiF-IR scan images and hyperspectral Scans

hyPIRana v1.0.1 initial release MIT License

added the MIT license in the release version v1.0.1 date 2024-10-15

The MIT License (MIT)

Copyright (c) 2022 - 2024, Daniela Täuber.

Permission is hereby granted, free of charge, to any person obtaining a copy
of this software and associated documentation files (the "Software"), to deal
in the Software without restriction, including without limitation the rights
to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
copies of the Software, and to permit persons to whom the Software is
furnished to do so, subject to the following conditions:

The above copyright notice and this permission notice shall be included in
all copies or substantial portions of the Software.

THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
THE SOFTWARE.

hyPIRana v1.0.0 initial release

see also: hyPIRana on ungersebastian

This sofware is part of hyperspectral analysis methods used in the published article: "Nanoscale chemical characterization of secondary protein structure of F-Actin using mid-infrared photoinduced force microscopy (PiF-IR)" by Jesvin Joseph, Lukas Spantzel, Maryam Ali, Dijo Moonnukandathil Joseph, Sebastian Unger, Katharina Reglinski, Christoph Krafft, Anne-Dorothea Müller, Christian Eggeling, Rainer Heintzmann, Michael Börsch, Adrian T. Press, Daniela Täuber. Spectrochimica Acta part A: Molecular and Biomolecular Spectroscopy, 306, 123612, 2024. https://doi.org/10.1016/j.saa.2023.123612

Contributions in this code so far have been made by Sebastian Unger, Maryam Ali, René Lachmann, Rainer Heintzmann, Mohammad Soltaninezhad and Daniela Täuber. For details see headers of the code.

This code analyzes the hyperspectral data by:

Plotting generated images: AFM Topography, integrated PiF-IR hyperspectral image, and AFM phase image.
Plotting the mean spectrum on PiF-IR intensity.
Principal Component Analysis PCA represented by loaded components plot, scatter plot, and individual component factor plots.

In the context of the article by Joseph et al. Spectrochimica Acta part A: Molecular and Biomolecular Sepctroscopy, 306, 123612, 2024, two PiF-IR hyperspectral data sets have been analysed using hyPIRana. The Raw data have been available in this repository:

single-fibrillar F-Actin
crosslinked F-Actin

version v1.0.0 date 2024-10-13