Publications by Bioshifts group
Exposure SDMs
Table of contents 1 Source code 2 Load data 3 Merge SDM results with bioshifts 3.1 Leading edge 3.2 Trailing edge 3.3 Optimum 3.4 Group 4 Explore relationships 4.1 N shifts per parameter 5 How closely related are observed and potential shifts? 5.1 Shifts at the study area 5.1.1 Per parameter 5.2 Shifts at the background area ...
2011 sym 13 img
SDM summary
Table of contents 1 sources 2 Load data 3 What taxa? 4 N of occurrences 5 N time periods 6 N study areas 7 Shift duration 8 Shift periods 9 SDM performace Summary SDMsAuthor Bioshifts Code rm(list=ls()) gc() used (Mb) gc trigger (Mb) max used (Mb) Ncells 586609 31.4 1345571 71.9 660908 35.3 Vcells 1064787 8.2 8388...
888 sym Python (7256 sym/23 pcs) 8 img
Adaptive potential - Merge genetic data to bioshifts
Table of contents 1 Load libraries and source code 2 Load bs_shifts 2.1 Remove species identified to the genus level or cf. 3 Load genetic data 3.1 Stats 4 Fix names at the genetic data 5 Merge genetic and bioshifts data 6 Stats 6.1 Which species? 6.2 How many shifts? 6.2.1 v1 6.2.2 v2 7 Explore relatioships 7.1 Malin’s da...
1653 sym Python (20849 sym/79 pcs) 18 img
Ecosystem sensitivity
Setup This document was created using R version 4.0.2 (2020-06-22) and the following packages: DT::datatable(data.frame(Package = unlist(lapply(info$otherPkgs, function(x) x$Package)), Version = unlist(lapply(info$otherPkgs, function(x) x$Version))), rownames = FALSE, options = list(dom = '...
3862 sym R (62227 sym/31 pcs) 24 img
Compare Bioshifts v1 and v2
1 setup # if (!require(devtools)) install.packages("devtools") # devtools::install_github("yanlinlin82/ggvenn") require(data.table) library(knitr) library(dplyr) library(DT) library(ggplot2) library(ggvenn) library(tidyverse) library(readxl) library(googledrive) library(writexl) 2 Load references # v1 stv1 <- fread('v1/References.cs...
2953 sym R (30854 sym/137 pcs) 6 img
Comparing Bioshifts DB v1/v2
1 setup # if (!require(devtools)) install.packages("devtools") # devtools::install_github("yanlinlin82/ggvenn") require(data.table) library(knitr) library(dplyr) library(DT) library(ggplot2) library(ggvenn) library(tidyverse) library(readxl) 2 Load references # v1 stv1 <- fread('v1/References.csv') names(stv1)[1:2] <- c('paperID', 'v...
3934 sym R (41315 sym/234 pcs) 15 img