Question: Looking For Appropriate Software For Ld Plot Using Ssr Markers
4
gravatar for Aabha
7.3 years ago by
Aabha120
Aabha120 wrote:

Dear all,

I am doing research about association mapping in plant.

I am having problem to make LD plot using SSR markers with the software TASSEL 2.1 because my material is heterozygous and the genotypes are not phased, so TASSEL 2.1 can’t calculate LD.

I am looking for appropriate software that can calculate LD with my material.

I thank you very much for any help or suggestion.

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ADD COMMENTlink modified 7.1 years ago by Larry_Parnell16k • written 7.3 years ago by Aabha120
1
gravatar for Larry_Parnell
7.3 years ago by
Larry_Parnell16k
Boston, MA USA
Larry_Parnell16k wrote:

We draw our plots with HaploView or HelixTree (by GoldenHelix).

ADD COMMENTlink written 7.3 years ago by Larry_Parnell16k

Thanks for your answer. But as I know these software ( HaploView or HelixTree) only works for SNP but not for SSR markers.

ADD REPLYlink written 7.3 years ago by Aabha120
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