Folded Multidimensional Site Frequency Spectrum Format

[qspreng...@gmail.com]

I have a question about the format for a folded multidimensional site frequency spectrum using the minor allele.  Our current input files (attached is a 2pop and 3pop SFS) have zeros in places where there are implausible events. Is it that all right? 

 

Also, when using a folded MSFS, in the command line would I use the  --foldedSFS option? Even for three or more populations? 

 

 e.g. ./fsc26 -t 3POPChrX.tpl -n 100000 -m -e 3POPChrX.est -M 0.001  -L 200 -q --multiSFS -c3 -B3 --foldedSFS    

Thanks!!

Quentin 

[Laurent Excoffier]

No for a folded sfs just use the -m option instead of the -d option. The --foldedSFS is to be used when the folded sfs has been computed by angsd for multiple pairs of populations 

[Laurent Excoffier]

also note that the -M 0.001 syntax is obsolete for fsc26 and can lead to problems, just use -M

Laurent