Entering edit mode
4.3 years ago
snishtala03
▴
70
Hello,
I have paired end Illumina data (150 bps). I used STAR and I am interested in identifying novel splice junctions.
I am having trouble understanding the significance of 2 columns in the SJ.out.tab file and would really appreciate your help with understanding -
What is the need and significance of -
- Column 4 - Strand
- Column 9 - max splice overhang.
Thank you so much!
I did come across that post. It says max splice overhang basically tells the most confident spliced read. I was hoping if I could understand a little more about the importance of this column.
I know what a Strand is. I am more interested in knowing why information about a junction from positive or negative strand is important?