Question: How to know the accuracy of a Multiple Sequence Alignment?
gravatar for mithrandir
3.3 years ago by
mithrandir40 wrote:

I have a set of protein sequences which I have aligned by using different Multiple Sequence Alignment methods such as TM-Coffee, MUSCLE, multialign in MATLAB, etc. Since this set of sequences is very divergent the alignment I am getting from different tools is very different so I am searching for a way to know which of the alignments is better. There are some papers which have looked at the accuracy of the alignment methods individually but I want to have a score for each alignment and compare that to arrive at a decision. Would the sum of pairs scoring work? Any papers that have used it? 

msa protein alignment sequence • 1.2k views
ADD COMMENTlink modified 3.3 years ago by Jean-Karim Heriche18k • written 3.3 years ago by mithrandir40
gravatar for Jean-Karim Heriche
3.3 years ago by
EMBL Heidelberg, Germany
Jean-Karim Heriche18k wrote:

These papers may be of interest: Quality assessment of multiple alignment programs and Evaluating the Accuracy and Efficiency of Multiple Sequence Alignment Methods.

ADD COMMENTlink written 3.3 years ago by Jean-Karim Heriche18k
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