Mercurial > repos > ecology > regionalgam_gls_adjusted
diff gls.R @ 0:e2bff90af491 draft default tip
planemo upload for repository https://github.com/galaxyecology/tools-ecology/tree/master/tools/regionalgam commit ffe42225fff8992501b743ebe2c78e50fddc4a4e
| author | ecology |
|---|---|
| date | Thu, 20 Jun 2019 04:04:19 -0400 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/gls.R Thu Jun 20 04:04:19 2019 -0400 @@ -0,0 +1,16 @@ +#!/usr/bin/env Rscript +library(nlme) +library(MASS) + +args = commandArgs(trailingOnly=TRUE) +input1 = read.table(args[1], header=TRUE) #input1=col.index =glmmpql-output +input2 = read.table(args[2], header=TRUE,sep=" ") #input2=data.index =abundance_index-output + +input1<-as.matrix(input1) + +year <- unique(input2$YEAR) +mod <- gls(input1~year) +summary<-summary(mod) + +save(mod, file = "mod.rda") +capture.output(summary, file="mod-summary.txt")