Data and code from: Thermal niche and habitat use by co-occurring lake trout (Salvelinus namaycush) and brook trout (S. fontinalis) in stratified lakes

Realized thermal niche and habitat use are two conceptualizations of fish habitat based on organismal performance or lake-specific ecology, respectively. Both habitat types were compared for lake trout (Salvelinus namaycush) and brook trout (S. fontinalis) co-occurring in four large (> 500 ha) oligotrophic lakes. Lakes were partitioned into two morphological categories based on possession of a central or non-central deep basin with corresponding differences in adjoining shelf areas. Lake asymmetry in basin location has been shown to strongly influence food web connections based on isolation of basins from shelf areas. Generally, overlap between both habitat types occurred in several comparisons with lake trout, suggesting that thermal habitat is a reasonable proxy for habitat use boundaries though not a full replacement for insights gained from habitat use models. For brook trout, overlap was not as consistent, especially for lakes with non-central basins. In central basin lakes, the..., Data are from one-hour set duration benthic gill-netting depth stratified randomized netting surveys conducted in four large lakes in Algonquin Provincial Park using standard North American large-mesh gillnets. Surveys were conducted during periods of thermal stratification (July-August) in the daytime. Each site was sampled at least three times during a survey. Lake volumes for hypsographic data were derived from digital bathymetric surveys conducted by Harkness Lab staff. ArcGIS software was used to calculate lake volume at 1 metre resolution from the digital bathymetry rasters. Temperature and DO profiles were collected mid-basin in each lake during the netting surveys. , Data and code to replicate the occupancy and overlap analysis and figures are provided in .Rdata files and can be opened in the R Statistical computing language. Analysis code is provided as .R scripts and is commented. .R files can be opened in any R editor, but are best viewed in RStudio. .Rdata files can be opened in any instance of R. Files are provided in a compressed file containing all files to replicate the analysis found in the paper. To recreate the hypsographic figure lake volume data is provided in a .csv file and lake outlines and contours in a .gpkg file. Both of these can be opened in code provided in a .R file which can be used in R or RStudio.热实现生态位（realized thermal niche）与生境利用（habitat use）是两类鱼类生境的概念框架，前者基于生物个体性能，后者则依托湖泊特异性生态学特征。本研究针对共存于4个面积大于500公顷的贫营养湖泊的湖鳟（*Salvelinus namaycush*）与溪鳟（*S. fontinalis*），对这两类生境类型开展对比分析。研究人员根据湖泊是否拥有中央深水盆地，结合邻接陆架区的差异，将所有湖泊划分为两类形态学类别。已有研究表明，盆地位置不对称导致的深水盆地与陆架区的隔离，会显著影响食物网的连通性。 总体而言，湖鳟的两类生境在多组对比中均存在重叠，这表明热生境可作为生境利用边界的合理替代指标，但无法完全替代生境利用模型所提供的生态学认知。 而就溪鳟而言，两类生境的重叠情况并不稳定，尤其在非中央盆地型湖泊中更为明显。在中央盆地型湖泊中，[原文此处存在内容缺失]。本研究的数据源自阿冈昆省立公园内4个大型湖泊的底栖刺网水深分层随机采样调查：采样采用标准北美大目刺网，设置时长为1小时，按水深分层布设。调查于热分层时期（7月至8月）的日间开展，每个采样点至少重复采样3次。 水深地形数据所需的湖泊容积由哈克尼斯实验室（Harkness Lab）团队开展的数字水深测量结果推导而来；研究人员借助ArcGIS软件，从数字水深栅格数据中以1米分辨率计算得到湖泊容积。刺网采样期间，研究人员在每个湖泊的盆地中部采集了温度与溶解氧（DO）剖面数据。 复现占有率与重叠度分析及图表所需的数据与代码已存储于.Rdata文件中，可通过R统计计算语言打开。分析代码以.R脚本形式提供，并带有详细注释。.R文件可在任意R编辑器中打开，推荐使用RStudio进行查看；.Rdata文件则可在任意R环境中加载。所有用于复现论文中分析过程的文件均打包于一个压缩归档文件中。 若需复现水深地形图表，湖泊容积数据已存储于.csv文件中，湖泊轮廓与等值线数据则存储于.gpkg文件中。二者均可通过配套.R文件中的代码进行读取，该代码可在R或RStudio中运行。