This readme.txt file was generated on 2022-02-04 by Martha Dellar GENERAL INFORMATION 1. Title of Dataset: Culex pipiens responses to temperature and nutrients and code for estimating survival and development rates 2. Author Information A. Principal Investigator Contact Information Name: Martha Dellar Institution: Leiden University and Deltares Address: Institute of Environmental Sciences, University of Leiden, Leiden, Netherlands Email: m.e.dellar@cml.leidenuniv.nl B. Associate or Co-investigator Contact Information Name: Sam Boerlijst Institution: Leiden University Address: Institute of Environmental Sciences, University of Leiden, Leiden, Netherlands C. Associate or Co-investigator Contact Information Name: David Holmes Institution: Leiden University Address: Mathematical Institute, University of Leiden, Leiden, Netherlands 3. Date of data collection: Main experiment: 2020-05-21 - 2020-05-05 Validation experiment: 2020-09-01 - 2020-09-29 4. Geographic location of data collection: Living Lab at Leiden University, Netherlands 5. Information about funding sources that supported the collection of the data: Data was collected part of the project 'Preparing for vector-borne virus outbreaks in a changing world: a One Health Approach' (NWA.1160.1S.210) which is (partly) financed by the Dutch Research Council (NWO) SHARING/ACCESS INFORMATION 1. Licenses/restrictions placed on the data: This work is licensed under a CC0 1.0 Universal (CC0 1.0) Public Domain Dedication license 2. Links to publications that cite or use the data: https://doi.org/10.1111/2041-210X.13814 3. Links to other publicly accessible locations of the data: NA 4. Links/relationships to ancillary data sets: Related code is available on Zenodo: https://doi.org/10.5281/zenodo.5148154 5. Was data derived from another source? NA 6. Recommended citation for this dataset: Dellar, Martha; Boerlijst, Sam; Holmes, David (2022), Culex pipiens responses to temperature and nutrients and code for estimating survival and development rates, Dryad, Dataset, https://doi.org/10.5061/dryad.18931zcxw DATA & FILE OVERVIEW 1. File List: - main_data.csv Data from main experiment (as descriped in accompanying paper https://doi.org/10.1111/2041-210X.13814) - validation_data.csv Data from validation experiment (as descriped in accompanying paper https://doi.org/10.1111/2041-210X.13814) - simulation_analysis_inputs_and_outputs.zip Contains: - 10 text files with input probabilities used in simulation analysis - 10 csv files with 'observed' populations, used as inputs in simulation analysis - 'outputs' folder, containing 20 sets of predicted probabilities, generated by the simulation analysis (10 from normal approach and 10 from mixed approach) 2. Relationship between files, if important: NA 3. Additional related data collected that was not included in the current data package: NA 4. Are there multiple versions of the dataset? NA METHODOLOGICAL INFORMATION 1. Description of methods used for collection of data: A full description of the methods is available in https://doi.org/10.1111/2041-210X.13814 2. Methods for processing the data: NA 3. Instrument- or software-specific information needed to interpret the data: All necessary code is available on Zenodo: https://doi.org/10.5281/zenodo.5148154 As described in our paper, two different methodologies were developed for analysing the data: 'normal' and 'mixed The normal version should run on a regular laptop. The mixed version will require a supercomputer or computing cluster. The mixed version requires Python3.7 or later, while the normal version should run on earlier versions (not tested). 4. Standards and calibration information, if appropriate: NA 5. Environmental/experimental conditions: We used 12 (3x4) different experimental treatments: - 4 nutrient treatments (0, 10,20 and 100 mg/L) - 3 temperature treatments (20, 25, 30 degrees celcius) 6. Describe any quality-assurance procedures performed on the data: Checked all the values were consistent with the experimental design. If there were anomalies (e.g. more mosquitoes than were originally added to the mesocosms), then these mesocosms were excluded from the dataset 7. People involved with sample collection, processing, analysis and/or submission: Maarten Schrama and Louie Krol were involved with experimental setup and data collection Erin Gorsich and Peter van Bodegom advised on statistical methodology Maarten Schrama, Eline Boelee and Gertjan Geerling reviewed the paper manuscript DATA-SPECIFIC INFORMATION FOR: main_data.csv 1. Number of variables: 8 2. Number of cases/rows: 426 3. Variable List: - Date observation was made - Mesocosm number (each mesocosm had a unique ID number, there were 4 mesocosms per treatment) - Treatment number (12 total): Treatment 1 2 3 4 5 6 7 8 9 10 11 12 N total(mgL-1) 0 0 0 10 10 10 20 20 20 100 100 100 Temperature(°C) 20 25 30 20 25 30 20 25 30 20 25 30 - L2: Number of L2 larvae observed - L3: Number of L3 larvae observed - L4: Number of L4 larvae observed - Pup: Number of pupae observed - Adults: Number of adults observed 4. Missing data codes: "NA" 5. Specialized formats or other abbreviations used: NA DATA-SPECIFIC INFORMATION FOR: validation_data.csv 1. Number of variables: 8 2. Number of cases/rows: 151 3. Variable List: - Date observation was made - Mesocosm number (each mesocosm had a unique ID number, there were 4 mesocosms per treatment) - Treatment number (3 total): Treatment 1 7 10 N total(mgL-1) 0 20 100 Temperature(°C) 20 20 20 - L2: Number of L2 larvae observed - L3: Number of L3 larvae observed - L4: Number of L4 larvae observed - Pup: Number of pupae observed - Adults: Number of adults observed 4. Missing data codes: "NA" 5. Specialized formats or other abbreviations used: NA DATA-SPECIFIC INFORMATION FOR: simulation_analysis_inputs_and_outputs.zip > Input probabilities Filenames: input0.txt - input7.txt, normal_probabilities.txt, mixed_probabilities.txt 1. Number of variables: 1 2. Number of cases/rows: 100 3. Variable List: - 48 development probabilities (Treatment (T) 1 L2, T1 L3, T1 L4, T1 P, T2 L2, T2 L3,..., T12 P) - 48 survival probabilities (T1 L2, T1 L3, T1 L4, T1 P, T2 L2, T2 L3,..., T12 P) - 4 detection probabilities (L2, L3, L4, P) 4. Missing data codes: "NA" 5. Specialized formats or other abbreviations used: NA DATA-SPECIFIC INFORMATION FOR: simulation_analysis_inputs_and_outputs.zip > Observations Filenames: sim_obs0.csv - sim_obs7.csv, norm_obs.csv, mixed_obs.csv For each file, observations were generated from the equivalent input probabilities file (see code on Zenodo 'simulation_analysis_create_inputs.py') 1. Number of variables: 7 2. Number of cases/rows: Each file includes daily populations under 12 treatments, with 4 replicates per treatment Actual number of rows is different for each file, as it took different amounts of time for populations to develop to adulthood. 3. Variable List: - Treatment number (12 total): - Replicate number (4 total) - L2: Number of L2 larvae observed - L3: Number of L3 larvae observed - L4: Number of L4 larvae observed - Pup: Number of pupae observed - Adults: Number of adults observed 4. Missing data codes: "NA" 5. Specialized formats or other abbreviations used: NA DATA-SPECIFIC INFORMATION FOR: simulation_analysis_inputs_and_outputs.zip > Outputs Filenames: all files take the format simulation_analysis__.txt X is 'norm' or 'mixed', indicating whether the normal or mixed approach was used to generate these results Y is 0-7, nm, or mx, indicating which of the sets of observed data was used to generate these results 1. Number of variables: 1 2. Number of cases/rows: 100 3. Variable List: - 48 development probabilities (Treatment (T) 1 L2, T1 L3, T1 L4, T1 P, T2 L2, T2 L3,..., T12 P) - 48 survival probabilities (T1 L2, T1 L3, T1 L4, T1 P, T2 L2, T2 L3,..., T12 P) - 4 detection probabilities (L2, L3, L4, P) - THESE CAN BE IGNORED, THEY ARE NOT USED TO ANALYSE THE SIMULATION ANALYSIS RESULTS AS THEY ARE NOT COMPARABLE BETWEEN THE NORMAL AND MIXED APPROACHES 4. Missing data codes: "NA" 5. Specialized formats or other abbreviations used: NA