Hi,every warm-hearted people in the forum. I am a beginner on genome assembly. I have been using Fastx-toolkit to remove the reads that have less than 80% of bases with quality lower than a value of 20, and then mask the bases below 20 with 'N'. But I did not the trimming function because I'm thinking about cleaving a read at 'N' site, removing 'N's and spliting the original read to several fragments so that I can keep more reads. Finally, I will eliminate the fragments below eg,50bp. But thus the header(ID name) of those fragments will be a problem. I think if I just use those reads for de novo assembly, I don't need to split at 'N' because the reads containing N will be k-mered by assembler. But if I want to use those reads for mapping, is it necessary or reasonable to do that by Perl script?
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Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...-
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