[Seqan-dev] reference genome size limitation

[patrick reed <pjr@uchicago.edu>]

Hi, I am trying to use tophat/bowtie to allign RNAseq data to a reference genome that is about 7gb in size.  From what i can decipher from your internals, i am a c++ novice, they use your software in the build functionality to build a reference genome, and SeqAn uses 32bit integers which limits the maximum reference size to about 4gb.  Is there anyway to convert to 64bit integers to allow for an extremely large reference genome.

-- 
Patrick Reed
Graduate Student
White Lab, IGSB
Committee on Neurobiology
University of Chicago
773-490-6241 






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