Research data and scripts for manuscript "Beyond Lux: Methods for Species and Photoreceptor-Specific Quantification of Ambient Light for Mammals"

<p dir="ltr">These files contain the raw data, analysis and scripts used to create the figures for the paper: Beyond Lux: Methods for Species and Photoreceptor-Specific Quantification of Ambient Light for Mammals</p><p dir="ltr"><b><u>Figure 1 Data - Mammalian melanopsin spectral sensitivities</u></b></p><p dir="ltr">Raw & normalised cell response data:</p><ul><li>Figure 1 - cell responses & lmax.xlsx</li></ul><p dir="ltr">lmax fitting script:</p><ul><li>Opsin_Fit-README.md</li><li>opsin-receptor-fitting-analysis.Rproj</li><li>1.extract_and_transform.R</li><li>2.fitting_procedure.R</li><li>3.fig_bootstrap_results.R</li><li>4.fig_RSS_per_lmax.R</li><li>5.sigmoind_fits_plots.R</li><li>calc_sum_log_photons_gov.R</li><li>create_govardovskii_template.R</li><li>lmax_based_5p_fitting.R</li><li>power_to_photons.R</li><li>responses.xlsx</li><li>spectra.xlsx</li></ul><p><br></p><p dir="ltr"><b><u>Figure 2 Data - Cross-species light dosimeter validation</u></b></p><ul><li>Figure 2 - ReadMe.txt</li></ul><p dir="ltr">Functions:</p><ul><li>plotspecs.m</li><li>plotvalidation.m</li><li>calculateerrors.m</li></ul><p dir="ltr">Workspaces (Used by functions above):</p><ul><li>calibration.mat</li><li>validation.mat</li></ul><p><br></p><p dir="ltr"><b><u>Figure 3 Data - Irradiance response curves for circadian phase shifting in C57 wild-type mouse</u></b></p><ul><li>Figure 3 - raw data.xlsx</li></ul><p><br></p><p dir="ltr"><b><u>Figure 4 Data - Cross-species α-opic EDIs across different light sources</u></b></p><ul><li>Figure 4 - raw data.xlsx</li><li>Figure 4 - SolarAngle.R</li><li>Figure 4 - SolarAngle.Rdata</li></ul><p><br></p><p dir="ltr"><b><u>Supplementary Figure 1 - Pre-Receptoral Filtering Data</u></b></p><ul><li>Pre_R_Filter-Cornea-1-Norm_cornea_trans_data.csv</li><li>Pre_R_Filter-Cornea-2-Transf_Norm_Spline_Norm_cornea_trans_data.csv</li><li>Pre_R_Filter-Cornea-2-Transf_Norm_SplineCubic_Norm_cornea_trans_data.csv</li><li>Pre_R_Filter-Cornea-3-cornea.trans.data.csv</li><li>Pre_R_Filter-Lens-1-Norm_lens_trans_data.csv</li><li>Pre_R_Filter-Lens-2-Transf_Norm_Spline_Norm_lens_trans_data.csv</li><li>Pre_R_Filter-Lens-2-Transf_Norm_SplineCubic_Norm_lens_trans_data.csv</li><li>Pre_R_Filter-Lens-3-lens.trans.data.csv</li><li>Pre_R_Filter-Vitreous-1-Norm_vitreous_trans_data.csv</li><li>Pre_R_Filter-Vitreous-2-Transf_Norm_Spline_Norm_vitreous_trans_data.csv</li><li>Pre_R_Filter-Vitreous-2-Transf_Norm_SplineCubic_Norm_vitreous_trans_data.csv</li><li>Pre_R_Filter-Vitreous-3-vitreous.trans.data.csv</li></ul><p><br></p><p><br></p>