Can anyone help me about the strand FLAG in the Bismark results for paired-end data?
Previously, I was working with single-end seq analysis using Bismark. It works perfectly for me.
Nevertheless, recently I am working on some paired-end data. I am confused about the strand FLAG in the Bismark results.
My paired-end data are directional. Therefore,
All "OT" have FLAG number "67"
All "CTOT" have FLAG number "131"
All "OB" have FLAG number "115"
All "CTOB" have FLAG number "179"
Correct me if I am wrong:
when FLAG is "67" or "131", it means the reads on the "+" strand?
The strand used as the genomic sequences for mouse.
When FLAG is "115" or "179", it means the reads on the "-" strand?
Am I right?
Previously, I was working with single-end seq analysis using Bismark. It works perfectly for me.
Nevertheless, recently I am working on some paired-end data. I am confused about the strand FLAG in the Bismark results.
My paired-end data are directional. Therefore,
All "OT" have FLAG number "67"
All "CTOT" have FLAG number "131"
All "OB" have FLAG number "115"
All "CTOB" have FLAG number "179"
Correct me if I am wrong:
when FLAG is "67" or "131", it means the reads on the "+" strand?
The strand used as the genomic sequences for mouse.
When FLAG is "115" or "179", it means the reads on the "-" strand?
Am I right?
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