A method and system for automatic pairing of gene sequencing multi-sample data files

Abstract

The present invention provides a method and system for automatic pairing of multi-sample data files for gene sequencing. The aforementioned method includes reading the files in the FASTQ format, obtaining the information of the ID of the sequencing fragment, and calculating the summary and summary of each temporary file by using an information summary algorithm. Steps to compare files with matching digests. The method of the invention and the system for realizing the method can quickly and accurately match sample data files, and distinguish the same sample template chain file and complementary chain file, reduce the problem of program execution errors caused by human beings, and improve the use efficiency of computer resources.

Description

technical field [0001] The invention belongs to the field of information processing, and in particular relates to a method and system for automatic pairing of gene sequencing multi-sample data files. Background technique [0002] In the process of gene sequencing, single-end sequencing is the simplest sequencing method. A single sequencing primer is used to make PCR proceed along the direction of the sequencing primer. Therefore, all sequencing fragments (reads) can only be read in one direction, but sequencing The quality of the reads will decrease as the sequencing progresses, resulting in less accurate reads the further back in the sequence. In order to overcome this shortcoming, paired-end sequencing technology has become popular. Sequencing is performed in two different directions from the two ends to the middle to obtain reads in two directions. The length of each read must exceed half of the entire sequence to be tested. The overlapping parts of the two matched reads...

AI Technical Summary

Problems solved by technology

However, the amount of samples detected by high-throughput sequencing is very large, so the dual-throughput sequencing method will obtain a large number of files recording reads information. A pair of data files (template strand file and complementary strand file) of reads information are matched. Therefore, how to quickly and accurately match the template strand and complementary strand files of each sample in multi-sample gene sequencing data files is a big problem

[0004] Most of the existing pairing methods use the file names of the samples generated by sequencing to match the template strand file and the complementary strand file, and to distinguish the template strand and the complementary strand. However, the data files of a large number of sequencing samples are difficult to manage only through the file name. And the file name is easy to be artificially modified, which eventually leads to the failure of the pairing program to execute normally

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