I'm interested in testing polyGembler as a method of grouping short-read contigs into linkage groups or chromosomes, without trying to order the contigs within chromosomes into linkage maps. I have a test dataset with 12 progeny, but when I run the haplotyper Stage I step, the output notes "EmissionModel - f1 individuals left: 12 (<30)", and the program exits with status 0. There is no output in the output directory, so it seems the program is designed for a minimum of 30 progeny. Is this interpretation is correct? If so, can this limit be modified?
I'm interested in testing polyGembler as a method of grouping short-read contigs into linkage groups or chromosomes, without trying to order the contigs within chromosomes into linkage maps. I have a test dataset with 12 progeny, but when I run the haplotyper Stage I step, the output notes "EmissionModel - f1 individuals left: 12 (<30)", and the program exits with status 0. There is no output in the output directory, so it seems the program is designed for a minimum of 30 progeny. Is this interpretation is correct? If so, can this limit be modified?