AraCLIM V2.0
Defining the local environment of Arabidopsis
About AraCLIM V2.0
AraCLIM V2.0, provides an intuitive tool to define the environment at the site of origin of each of 2,999 geo-referenced accessions sequenced as part of the 1,001 Genomes Project, recently sequenced Chinese, African, and Madeiran accessions plus those in the 250K global Arabidopsis SNP array.
AraCLIM V2.0 is an SHINY component of CLIMtools that provides an interactive spatial analysis web platform using Leaflet. Data points represent the sites of collection of sequenced accessions in an interactive world map. AraCLIM V2.0 allows the inspection of two environment variables simultaneously. The user can first choose an environmental variable (Environmental variable A) that is displayed on the map using a color gradient within the ranges and units detailed in the color palette within the map. Clicking on any of the data points on the map provides information on the selected accession, including its curation details, and the value of the chosen environmental variable for the selected accession.
AraCLIM V2.0 allows the user to analyze pairwise environmental conditions for these 1,131 accessions using the ggvis package in SHINY. The environmental variable selected on the map (Environmental variable A) can be compared with a second environmental variable that is user-specified (Environmental variable B); the two variables are displayed with a linear correlation provided based on data for the local environments of the 2,999 accessions. We also provide an interactive tabulated database describing the environmental variables available at AraCLIM, including their source, units and period of data collection using the DT package in SHINY.
