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andyrimmer / Platypus

Platypus Variant Caller
GNU General Public License v3.0
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highly inbred species #38

Closed agolicz closed 8 years ago

agolicz commented 9 years ago

Hi,

I work on highly inbred diploid plant species, in many plants we would expect >90-95% homozygosity. I have been testing Platypus and it seems to be faring quite well in this scenario. Do you think it is a legitimate application?

Agnieszka

gerton commented 9 years ago

Hi Agnieszka,

Yes — Platypus assumes diploid organisms; it will work fairly well in haploid species / chromosomes except for the occasional het call, but generally should not have difficulty with dealing with high levels of homozygosity.

Best wishes Gerton

On 19 Mar 2015, at 07:55, agolicz notifications@github.com wrote:

Hi,

I work on highly inbred diploid plant species, in many plants we would expect >90-95% homozygosity. I have been testing Platypus and it seems to be faring quite well in this scenario. Do you think it is a legitimate application?

Agnieszka

— Reply to this email directly or view it on GitHub https://github.com/andyrimmer/Platypus/issues/38.