I am dealing with quant-seq data, and I was wondering if I should use "-e" or not, also can you explain the description of "-e" in the DOCS, "Deactivates NextGenMap’s SLAMSeq alignment settings. Can be used to align plain QuantSeq data instead of SLAMSeq data."? THank you
if you have plain unlabelled QuantSeq data (no T>C conversions), then you should use -e to disable the alternative base scoring scheme we established for SLAM-seq data.
Hi,
I am dealing with quant-seq data, and I was wondering if I should use "-e" or not, also can you explain the description of "-e" in the DOCS, "Deactivates NextGenMap’s SLAMSeq alignment settings. Can be used to align plain QuantSeq data instead of SLAMSeq data."? THank you