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.
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 appreciated!
2 answers
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Is it showing any error message or just not displaying anything?
No error message, I just noticed it because I extracted some sequences.