I am studying RNA-seq in limited number of cells and have used PE (75bp) to sequence mRNA. Since the data ultimately we get will be very limited. I was wondering will it be useful if I merge both PE reads and use it for further analysis and may improve mapping. I read several tools like BB merge can be used. The aim is to identify signature genes associated with disease based on DE. Any input will be great. Thanks
Thanks. 'Cat' is good to join multiple Fastq. However I am trying to get information from limited amount of single cell data which will be specific and can improve the alignments.