How to make substitution matrix?

Hi all,

 I have several sets of multiple sequence alignment, and I want to use all these sets to build a substitution matrix. 
 Could someone suggest me a easy to use R package or binary app?
 Thanks!

alignment substitution_matrix

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updated 8.9 years ago by kloetzl

• written 8.9 years ago by bibilong1111 •

1 answer

Depending on your file formats and definition of substitution matrix, maf2dist might do the trick.

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written 8.9 years ago by kloetzl

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