{"entities":{"Q6678602":{"pageid":14397898,"ns":120,"title":"Item:Q6678602","lastrevid":56905932,"modified":"2026-03-24T13:38:26Z","type":"item","id":"Q6678602","labels":{"en":{"language":"en","value":"Supplementary Data and Code: Different traits dominate evolution at early and late stages of adaptive radiation"}},"descriptions":{"en":{"language":"en","value":"Dataset published at Zenodo repository."}},"aliases":{},"claims":{"P31":[{"mainsnak":{"snaktype":"value","property":"P31","hash":"dae155fd0809a7906855cd4fa50dd7d71bed552b","datavalue":{"value":{"entity-type":"item","numeric-id":56885,"id":"Q56885"},"type":"wikibase-entityid"},"datatype":"wikibase-item"},"type":"statement","id":"Q6678602$6B209FE2-0E90-4B9F-81DE-5F25922CFEE8","rank":"normal"}],"P1459":[{"mainsnak":{"snaktype":"value","property":"P1459","hash":"c2f1d709d5cd46b62d83c366a17bb3402e6b5b05","datavalue":{"value":"Supplementary Data and R code for phylogenetic analyses for manuscript entitled Different traits dominate evolution at early and late stages of adaptive radiation. Code.zip contains all R scripts and data needed for analyses in the paper. It is divided in two parts, DECOUPLED DIVERSIFICATION (folder 1) and STATES-DEPENDENT SPECIATION AND EXTINCTION (folder 2). 1) DECOUPLED DIVERSIFICATION \"data\" folder contains phyogeny, morpho and eco data, species by clades, and RDS with imputed values for missing traits. Niphargus_trait_evolution.rmd file runs neccessary packages and scripts and outputs results. Note that working directory and \"result\" folder need to be defined before you run the script. 00_data.R: import and data manipulation, including imputation of missing values to morpho ds. All variables needed in later analyses are defined here, including subsets, subclades, etc.00_functions.R: all custom functions01_figure1_phylogeny.R: plots half-circle phylogeny02_regression_PCA.R: runs phylogenetic regression and PCA, and saves results03_kmeans.R: calculates k-means and saves results04_modeling.R: runs modeling, ancestral trait reconstruction and morphospace expansion through time, simulations and comparison of morphospace expansion of real and simulated data. 2) STATES-DEPENDENT SPECIATION AND EXTINCTION This folder includes data and code used for sec_sse analysis. The analysis was run on whole genus and three major clades. Additionally, trophic trait classes were compared with habitat trait class (trophicD and trophicP), so overall, 8 combinations of model comparisons were performed. The folder is thus divided into \"clades\" and \"whole_genus\" subfolders. Data and R scripts for model setup, launching the analysis and calculation of AIC values are provided.","type":"string"},"datatype":"string"},"type":"statement","id":"Q6678602$E0D9C8E8-DAB9-4EC9-80A4-C196ECFC6D89","rank":"normal"}],"P28":[{"mainsnak":{"snaktype":"value","property":"P28","hash":"42abfce89b1423fa7cf41a79fedc46406f32c813","datavalue":{"value":{"time":"+2024-06-18T00:00:00Z","timezone":0,"before":0,"after":0,"precision":11,"calendarmodel":"http://www.wikidata.org/entity/Q1985727"},"type":"time"},"datatype":"time"},"type":"statement","id":"Q6678602$68982781-F676-48F3-923B-E647B800CA3E","rank":"normal"}],"P227":[{"mainsnak":{"snaktype":"value","property":"P227","hash":"045e4f3739918ba4fed0db13b224820d32855975","datavalue":{"value":"12099120","type":"string"},"datatype":"external-id"},"type":"statement","id":"Q6678602$AEEED847-912B-4101-92D0-EA1FC5485E49","rank":"normal"}],"P163":[{"mainsnak":{"snaktype":"value","property":"P163","hash":"45fcd4163b5f33e6e8c784f5522d7246c0a1a61e","datavalue":{"value":{"entity-type":"item","numeric-id":57056,"id":"Q57056"},"type":"wikibase-entityid"},"datatype":"wikibase-item"},"type":"statement","id":"Q6678602$3DC05F7D-C282-4E87-9B0F-ADB8F3431D5A","rank":"normal"}],"P1460":[{"mainsnak":{"snaktype":"value","property":"P1460","hash":"d1e8073b72a070520efd3d14d4b3d2d3d03859e2","datavalue":{"value":{"entity-type":"item","numeric-id":5984635,"id":"Q5984635"},"type":"wikibase-entityid"},"datatype":"wikibase-item"},"type":"statement","id":"Q6678602$FA5CC8A3-EF10-4142-AE99-C427C901B55A","rank":"normal"}],"P27":[{"mainsnak":{"snaktype":"value","property":"P27","hash":"565d47c6c25b45a687d177ccc53ebbab7ba5d29c","datavalue":{"value":"10.5281/ZENODO.12099120","type":"string"},"datatype":"external-id"},"type":"statement","id":"Q6678602$21DB70C0-5127-424F-902E-14CBB47F6EBF","rank":"normal"}]},"sitelinks":{"mardi":{"site":"mardi","title":"Supplementary Data and Code: Different traits dominate evolution at early and late stages of adaptive radiation","badges":[]}}}}}