High-throughput sequencing data quality control system based on multi-core CPU and GPGPU hardware

A sequencing data and control system technology, applied in the direction of electrical digital data processing, special data processing applications, instruments, etc., can solve the problems that cannot meet the requirements of high-throughput sequencing data analysis, improve efficiency, overcome computing bottlenecks, and speed up research Effect

Inactive Publication Date: 2014-06-04
YELLOW SEA FISHERIES RES INST CHINESE ACAD OF FISHERIES SCI +1
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Problems solved by technology

[0004] In order to overcome the deficiency that traditional computers and analysis methods cannot meet the requirements of high-throughput sequencing data analysis, the present invention proposes a method based on multi-core CPU and GPGPU (general-pu

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  • High-throughput sequencing data quality control system based on multi-core CPU and GPGPU hardware
  • High-throughput sequencing data quality control system based on multi-core CPU and GPGPU hardware
  • High-throughput sequencing data quality control system based on multi-core CPU and GPGPU hardware

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Embodiment Construction

[0022] exist figure 1 In , the software must be compatible with the hardware, so the software version can be backward compatible with the hardware.

[0023] exist figure 2 Among them, the basic configuration of computing and storage hardware of the high-throughput sequencing data quality control system based on multi-core CPU and GPGPU hardware is: a single CPU has at least 4 independent physical computing cores, including GPGPU (general-purpose parallel processor) running hardware (at least G80 or above architecture), dual-channel memory of 2GB or more, hard disk at least 50G or more. High-speed interconnection between CPU, GPGPU and storage.

[0024] exist image 3 Among them, the basic configuration of the software platform of the high-throughput sequencing data quality control system based on multi-core CPU and GPGPU hardware is: Linux operating system, pre-installed GCC operating environment, CUDA operating environment (above 3.0), QC-Chain software system version 1.0...

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Abstract

The invention provides a computing analysis system which is based on multi-core CPU and GPGPU hardware and combines software and hardware, and particularly relates to a high-throughput sequencing data quality control system based on multi-core CPU and GPGPU hardware. According to the characteristic that massive data can be processed in parallel in the high-throughput sequencing data processing process, the system is provided to solve the problem that a traditional computer cannot meet the analysis requirement for carrying out quality control over massive high-throughput sequencing data. A main module of the high-throughput sequencing data quality control system based on the multi-core CPU and GPGPU hardware comprises a multi-core CPU and GPGPU computer and a unified software platform. The system is characterized in that a high-performance parallel computing and storage hardware system and the high-performance, unified and configurable software platform are included. According to high-throughput sequencing data quality control processing based on the multi-core CPU and GPGPU hardware, analysis efficiency of high-throughput sequencing data quality control can be obviously improved.

Description

technical field [0001] The patent of the present invention relates to a computer analysis system combining software and hardware for quality control of high-throughput sequencing data in bioinformatics, especially capable of quickly performing quality control on high-throughput sequencing data. Background technique [0002] High-throughput sequencing technology, also known as "next generation" sequencing technology, is a revolutionary change to traditional sequencing. It can sequence hundreds of thousands to millions of DNA / RNA molecules at a time, making the transcriptome of a species , Genomes and metagenomes of microbial communities can be analyzed in detail and comprehensively, and are more and more widely used in biology and related research. [0003] Compared with the traditional Sanger sequencing technology, the throughput of the next-generation sequencing technology is increased by one to two orders of magnitude, and it can economically cover the genome with high mag...

Claims

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Application Information

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IPC IPC(8): G06F19/20
Inventor 周茜宁康苏晓泉徐健
Owner YELLOW SEA FISHERIES RES INST CHINESE ACAD OF FISHERIES SCI
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