scat

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Issues implementing a boundary file

1

Hello, I did a preliminary run with my dataset, and the output assigned all of my unknown individuals to Portugal/southern Spain/northern Morocco. This was expected based on pairwise Fst clustering...

emhelliwell

Warning INFO

2

Matthew, Hi, I asked previously (in another thread) about warnings, and wanted to double back on it one more time. When running SCAT on a large SNP data set (+6000...

ddrinan

Number of assigned location and warnings

1

I have a quick question about the number of assigned locations that should exist in the output file. My understanding was that for every sample you were trying to assign,...

ddrinan

Trouble running SCAT with huge dataset

9

I am having trouble executing SCAT with my SNP dataset consisting of more than ~18k loci for both assigning individuals and estimating allele frequencies. My file format is formatted as...

elizeng

Defining multiple polygons in continuous assignment

1

Hi, I am working with a species that has a huge range that includes multiple islands, and am wondering if it is possible to define boundary polygons that specify each...

elizeng

usage statement

1

usage statement is out of date/conformity

chad-klumb

burn-in iterations

1

from Chad Klumb: One other scat question relates to the burn-in iterations being written to the same file as the main iterations, which is what's currently done. For down-stream operations...

stephens999

@chad-klumb can you add R scripts for processing output to the repo, as we discussed? maybe under a /R directory?

stephens999

it seems we don't actually check these bounds even though they are defined. is this a bug?

stephens999

This patch re-enables PRNG seed setting to allow deterministic runs. Not setting a seed on the command-line will use the current default behavior of picking a seed from `std::random_device`. A...

jsatterfield-linux