Hi, previously I had used MUMer to run but the input are only able to upload 1 Fasta file. When I test run a reference and the sample it work great but when I combine my sample 1 and sample 2 data as a multi Fasta file to compare with the reference data, the sample data of the 2 samples were combined . How do I solve this? Is there any multiple sequence alignment tool which is open source is recommended?
Thank You:)
Best regards ,
HuiWen
The problem you mention is an obvious result of the mistake you are making. Why would you mix data of two samples in you want to use them against reference? What do you want to do with them, and are you sure you are using MUMmer for the correct purpose? What is your purpose, why are you using it and eventually what you want to do?
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