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Question: Looking For Appropriate Software For Ld Plot Using Ssr Markers
4
gravatar for Aabha
8.0 years ago by
Aabha • 120
Aabha • 120 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.
linkage • 2.8k views
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modified 7.7 years ago by Larry_Parnell ♦ 16k • written 8.0 years ago by Aabha • 120
1
gravatar for Larry_Parnell
8.0 years ago by
Larry_Parnell ♦ 16k
Boston, MA USA
Larry_Parnell ♦ 16k wrote:

We draw our plots with HaploView or HelixTree (by GoldenHelix).
ADD COMMENT • link written 8.0 years ago by Larry_Parnell ♦ 16k

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

ADD REPLY • link written 8.0 years ago by Aabha • 120
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