What's the difference between different quality control softwares?
I'm a beginner in bioinformatics. I used Trim_galore when I first analyzed chip-seq data. When I tried to process RNA-seq data, the tutorial recommended using another QC software named Trimomatic. Is there any difference between the files processed by different software, and can I use Trim_galore to process my RNA-seq data?
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Small nitpick but these are not quality control programs. These are "scan and trim" programs that look for specific sequences (generally adapter or anything else) and help remove them as needed.
trimgaloreis a wrapper around (cutadapt- trim program + FastQC - QC program).trimmomaticis a standalone scan/trim program.