I ran FastQC software on whole genome sequence (WGS) data of Human sample (with expected coverage 30X), generated from illumina HiSeq platform. It all appears good (green) except : In case of Forward as well as Reverse Reads
warning (Orange) : Per base sequence content and Per base GC content.
Fail (Red) : K-mer content.
I want to run 'Trimmomatic' for 'Trimming' of poor bases. What should be the parameters of Trimmomatic so that it minimize/remove poor reads and K-mer error ?. I want to show my .html pages of fastqc run but didn't find any way on BioStars ?.
Looking forward for responses as i need them because i am new in NGS data analysis field. Thank you.