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Old 08-29-2012, 07:40 AM   #1
mez
Junior Member
 
Location: georgia

Join Date: Nov 2011
Posts: 5
Default Creating Phylogenetic tree from MAF format file

I hope this is relevant to the discussions here.

I am working on a metagenome project and have genome sequences of several strains of a bacteria species, un-assembled, but in contig reads. I used the mugsy program to align them and I have been trying to find a tool to create a tree out of the MAF format file I generated, but I am having issues because of the nature of the original sequences being in contigs rather than assembled.

I am hoping someone jas worked with unassembled genomes with contig reads and could be able to point me to how I could generate an acceptable multi-alignment format from the data

Thanks as always.

mez.
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