MEGAN5: parsing problem?

Letia

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Join Date: Jul 2013

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MEGAN5: parsing problem?

07-29-2015, 12:29 AM

I have an assembled transcriptome that I blasted against the nr_db from NCBI. I want to use MEGAN to get some taxonomic information on the reads. I imported my blast xml files into MEGAN5 and all seemed to work fine. When I click a node to inspect which hits are associated with a given taxon I encounter a problem. The majority of the hits are listed correctly with the query id header but some do not have a header and the hole sequence or parts of a sequence is displayed. This results in incomplete sequences when I want to extract subsets of reads. This is how it looks like:

I have no clue what is happening there and how to fix it. Anyone encountered a similar problem?

Could there be a problem with the blast xml input files? Or is it a parsing problem? Any idea how to fix this?

Any help is apreaciated!
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hoytpr

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Join Date: Dec 2009

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09-04-2015, 07:05 AM

Hello Letia,
I am having the same problem and have emailed Daniel Huson about it. I worry it is something I have done wrong, but hopefully Daniel can recognize it and tell me what to do correctly.

Peter
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MEGAN5: parsing problem?

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