Hi Biostars Community,
These are from patient rheumatoid arthritis samples.
My % aligned was at about 85% for all samples, and mapped reads (M aligned) roughly about 6-9 (million) for most of the samples. However one of the samples and all of its technical replicates had mapped reads in the 16-18 (million) range. This was also similiar before mapping to the transcriptome using salmon. What could be an explanation for this?
This picture is before mapping.
This picture is after mapping:
Thank you in advance. I will pay it forward!