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This article is about how to view a specified sequence of fastq files in linux. The editor thinks it is very practical, so share it with you as a reference and follow the editor to have a look.

When dealing with fastq files, you may encounter problems such as inconsistent length or incorrect format between the sequence and the quality value. At this time, the software will report which sequence has a problem, and give the sequence ID, and then we will go to see what the problem is. However, the fastq file is usually very large and may be difficult to search with the less command, so we can use the following command to view it.

Zcat / share/nas1/DATA/zx-20180122-15/XM8_H33TNDMXX_L1_2.clean.fq.gz | grep-E "A00164:71:H33TNDMXX:2:2438:30400:20353"-C4 > xm8-2.txt &

Zcat can view the fastq compressed file, grep matches the sequence ID, and the parameter-C 4 can output four lines before and after the matching line.

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