Hello,
I'm relatively new to using FASTQC and was wondering how it works and how it determines the quality of a read. The documentation doesn't mention much and is more of an instruction manual. Thanks.
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Irvin •
2 answers
new to using FASTQC and was wondering how it works
Have you looked at these pages: https://www.bioinformatics.babraham.ac.uk/projects/fastqc/Help/3%20Analysis%20Modules/ They provide information about individual modules.
Do they mean that the .fastq files all have quality information encoded within the file already?
Yes they do. Each base has a corresponding quality call in fastq record.
As @Pierre noted you will find it useful to check the entire Wiki Page for Fastq format: https://en.wikipedia.org/wiki/FASTQ_format
Hum your question is not clear to me...
how it works
it scans all the reads and makes statistics
how it determines the quality of a read.
https://en.wikipedia.org/wiki/FASTQ_format#Quality
see also: https://hbctraining.github.io/Training-modules/planning_successful_rnaseq/lessons/QC_raw_data.html
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