Heatwaves cause relative fitness decline in aquatic insects by altering life history and host-pathogen relationships - Data and R scripts

Data and r scripts related to the paper.

InfectTempDataStored -
Daily data from saprolegnia experimental heatwave experiment 2021. Data includes egg mass identification and the related infection, hatching and dead eggs for each day until the completion of the experiment.
column names
Date - Date of observation
Day - Numbered day of experiment on given date
Temps - Temperature name given to each treatment. 22.5 = High, 12.5 = Low and Spike = Spike
Personnel - Initials of individuals taking observations on given day/date
Ro_ID - Identification number of rock
Cl_ID - identification number of clusters of egg masses on a given rock
EM_ID - identification number ofegg masses within a cluster on a given rock
IsEdge - y/n as to whether an egg mass is on the outside of a cluster or entirely surrounded by other egg masses
Riffle - Location where the rock was collected from
Infect% - estimated percent of infected eggs on given day/date
Hatch% - estimated percent of hatched eggs on a given dat/date from healthy eggs. infected eggs not included
D_Eggs - presence of dead eggs which are not infected 1 = yes, 0 = no. infected eggs not included
notes - notes for individual egg masses
Egg_count - number of egg in each egg mass
Neonate_count - number of neonates counted for each rock, only labelled in one egg mass per rock as they are counted at the rock scale. changed to neonates per rock in rStudio

InfectTempScript.r -
r script analysing above data

First5DaysScript.r -
same data set as above script but filter to only the first 5 days

fungusHelpers.r -
functions used in previous two scripts

PopulationModelScript.r -
script where the population modelling occurs.
maxtempsurvivalmodelpreds + sustainestemphatchmodelpreds are used in this script after being created in the InfectTempScript
LOW, SPIKE and HIGH life table .xlxs are also used in this script

TempLoggers.r -
Script where the temp loggers from the lab experiment are uploaded and cut to the right date/time for visualisation