Entering edit mode
7.9 years ago
alexa.schlegel
•
0
Is it possible to use HadoopBAM to analyse reads? I would like to count the mapped/unmapped reads at each position? I just read it can manipulating BAM/SAM files.
I would like to change the OutputFormat to normal text instead of a new BAM file. So my InputFormat would still be BAMInputFormat, but the OutputFormat should be instead of KeyIgnoringBAMOutputFormat a TextOutputFormat (org.apache.hadoop.mapred.TextOutputFormat;).
How would I do that? Or where could I find help on that?
