You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
In single end mode, R2s are always discarded, as single-end BAM files should not have R2s. If the R1 from A and B are different, then they will be not be collapsed.
However, in recent releases, paired mode should not be substantially slower than single end mode for the majority of datasets. Or, at least, it is not the pairing per-se that makes it slower; paired mode might be slower because it leads to more reads being considered independent of each other, and therefore gives a more complex network to devconvolve.
Hello,
Since
paired
option is slow, I'm wondering what will happen if I do not use thepaired
option?If read
A
andB
have the same UMI, but:A and B have different
tlen
A R1 and B R1 is different, but A R2 and B R2 mapped to the same exact location.
Will A and B be collapsed into one read?
Thanks,
Yichao
The text was updated successfully, but these errors were encountered: