We have a whole transcriptome dataset from a SOLiD sequencer that is a 100GB .bam file. In some places there is a read depth of greater than 1x10^7 reads. We have not been able to find a tool able to visualize this amount of data. IGV, MagicViewer, Tablet and Artemis have all died when looking at those portions of the genome (which for this experiment contain our genes of interest). Our visualization testing was done allowing up to 12GB of RAM, though we could probably get that up close to 20GB for a few tests.
Is there a tool that can visualize this sort of data directly? If so, what kind of memory requirements would it have for this much data?
Are there tools to pre-process or distill the data down to a visualizable summary?
Is there a tool that can visualize this sort of data directly? If so, what kind of memory requirements would it have for this much data?
Are there tools to pre-process or distill the data down to a visualizable summary?
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