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Old 04-29-2011, 12:24 AM   #8
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Location: Mexico

Join Date: Mar 2011
Posts: 7

Originally Posted by louis7781x View Post
Hi,I want to know:CNV-seq input file is DNA-seq or RNA-seq?
Hi Louis,

CNV-seq input consists in just two files (reference & test) with just two columns each.
First column corresponds to the third column in a BAM file, that is the reference sequence name of the alignment (Chr1, Chr2, ..), the second column is the fourth column of a BAM file, that is the corresponding 1-based leftmost mapping position of that read. Input files can look like this:

1 999
1 1234
1 23456
1 25234

Full explanation of the input, how to get it, how to run CNV-seq, etc:

Jose Flores
J. Rodrigo Flores
Center for Genomic Sciences, UNAM, Mexico
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