Re: [Ldhat-help] lookup table

[Adam A. <ada...@gm...>]

It depends on what organism your data is from. If it is human data, then
the likelihood tables from the website will be suitable (with mutation rate
theta = 0.001).

Adam


On 21 December 2013 14:12, Yogendra Khedikar <ykh...@gm...> wrote:

>
> Hi,
> I want to calculate rate of recombination and recombination hot spot using
> LDhat.
> I have SNP genotyping data for 400 line with >2000 markers.
> which look up table should I used? Do I need to generate new? How can I
> generate new look up table?
> I am new to this analysis. Please help me.
>
>
> On Fri, Nov 29, 2013 at 2:59 PM, Yogendra Khedikar <ykh...@gm...>wrote:
>
>> Hi,
>> I want to calculate rate of recombination and recombination hot spot
>> using LDhat.
>> I have SNP genotyping data for 400 line with >2000 markers.
>> which look up table should I used? Do I need to generate new? How can I
>> generate new look up table?
>> I am new to this analysis. Please help me.
>>
>>
>> --
>> Thanks and kind regards,
>> Yogendra P Khedikar
>>
>>
>
>
>
> --
> Thanks and kind regards,
> Yogendra P Khedikar
>
>
>
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-- 
Adam Auton
Assistant Professor,
Department of Genetics,
Albert Einstein College of Medicine,
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