Illumina Reads Quality Control and Preprocessing
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?
-
Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?
Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating...10-14-2026, 09:55 AM -
Researchers using sequencing and genomics tools often have to make trade-offs. They can choose between speed or scale, short reads or long-range information, or targeted panels or a view of the whole transcriptome. New technologies that have been released this year are built to address those tough choices.
We asked six companies the same four questions to learn about their latest products. The new technologies bring a lot to the table, including rethinking sequencing...