I’m having huge hassles lately. I am attempting to pull out different species of bacteria for strain otu analysis. I first attempted it with (get.lineage command) betaproteobacteria and got lovely results. I then did it again for Spirochaete. Everything works beautifully until I type in
“make.shared(list=final.pick.an.list, group=final.pick.groups, label=0.03)”
at which point I am told that mothur.exe has stopped working and the program is closed. The only difference that I can identify is that in the case of the Beta’s, there were 55 sequences left whereas the Spirochaetes were left with only 11 sequences before the make.shared command was used. Any help with this would be hugely helpful!!!
Sam Waterworth - MSc student, Rhodes University, South Africa