Hi,
How can I just find out how many reads are there in a fastq file?
Thanks,
Parham
How can I just find out how many reads are there in a fastq file?
Thanks,
Parham
-
-
wc -l file.fastq will give you the number of lines, then you can divide that by four.
Or you can just run fastqc. -
Or
grep xxx -c file.fastq
xxx being some string of characters only found in sequence identifiers
With MiSeq generated fastq an example would be
grep @M00 -c file.fastqLast edited by JackieBadger; 02-17-2014, 11:34 AM.Comment
-
Thanks guys.Comment
-
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...
Comment