Dear all,
I am wondering when the analysis software like smrtPORTAL generate the Reads of Insert from the subreads, in which orientation those reads would be ( I mean the reads of Insert reads). And if some of them in reverse, is it reverse or reverse complement. And is there any way to find out how many reads of each orientation you have?
I am asking because, in my data around 14000 Reads of Insert, I have a significant number of the reverse reads, i can see them appearing on the IGV when i got the sam file. And want to know if whether each Read of Insert represents one molecule, or I have to count the Reverse as well, so will have 2 reads for one molecule. In this way of calculating it, then i would have only 7000 reads that represent 7000 individual molecules???
Many thanks
I am wondering when the analysis software like smrtPORTAL generate the Reads of Insert from the subreads, in which orientation those reads would be ( I mean the reads of Insert reads). And if some of them in reverse, is it reverse or reverse complement. And is there any way to find out how many reads of each orientation you have?
I am asking because, in my data around 14000 Reads of Insert, I have a significant number of the reverse reads, i can see them appearing on the IGV when i got the sam file. And want to know if whether each Read of Insert represents one molecule, or I have to count the Reverse as well, so will have 2 reads for one molecule. In this way of calculating it, then i would have only 7000 reads that represent 7000 individual molecules???
Many thanks
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