i am completely newbie to NGS data analysis. i just took an adapter fie and some reads to practice and play around options regarding illuminaclip and trimmomatic. i want to take out for example all reads having the first five nucleotides of adapter how u would change the options?
my second question is that if reads are produced from a deepsequencing to find miRNAs what happens to the adapters? we should keep them?if yes what kindof tool or command you will use?
my second question is that if reads are produced from a deepsequencing to find miRNAs what happens to the adapters? we should keep them?if yes what kindof tool or command you will use?