scReadCounts with strand information

HorvathLab / NGS

Next-Gen Sequencing tools from the Horvath Lab

https://horvathlab.github.io/NGS/

MIT License

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scReadCounts with strand information #6

Closed lucia-ramirez closed 2 years ago

lucia-ramirez commented 2 years ago

Hi,

Would it be possible to have the counts by strand? This would be helpful for variants overlapping multiple transcripts where one is in the opposite direction.

Many thanks,

Lucia

edwardsnj commented 2 years ago

Hi Lucia, this is quite feasible, the underlying readCounts table contains this information. I will be releasing a new release of ReadCounts and SCReadCounts shortly, and I will add this feature to scReadCounts.

edwardsnj commented 2 years ago

Hi Lucia, I have added the requested feature to scReadCounts (--directional) in release 1.2.0. Let me know if you have any questions or problems with this feature.