High-performance metagenomic data analysis system on basis of GPGPU (General Purpose Graphics Processing Units) and multi-core CPU (Central Processing Unit) hardware

A data analysis system and metagenome technology, applied in the field of analyzing massive metagenome data, can solve problems such as the inability to meet the requirements of massive metagenome data analysis, and achieve the effect of improving data analysis efficiency, overcoming computational bottlenecks, and speeding up progress

Inactive Publication Date: 2013-09-18
QINGDAO INST OF BIOENERGY & BIOPROCESS TECH CHINESE ACADEMY OF SCI
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Problems solved by technology

[0004] In order to overcome the deficiency that traditional computers and analysis methods cannot meet the analysis requirements of massive metagenome data, the present invention proposes a method based on GPGPU (general-purpose parallel processor) and multi-core CPU hardware according to the characteristics that massive data can be processed in parallel in metagenome data processing. Metagenome Computing and Analysis System Combining Software and Hardware Methods

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  • High-performance metagenomic data analysis system on basis of GPGPU (General Purpose Graphics Processing Units) and multi-core CPU (Central Processing Unit) hardware
  • High-performance metagenomic data analysis system on basis of GPGPU (General Purpose Graphics Processing Units) and multi-core CPU (Central Processing Unit) hardware
  • High-performance metagenomic data analysis system on basis of GPGPU (General Purpose Graphics Processing Units) and multi-core CPU (Central Processing Unit) 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 computing and storage hardware configuration of the metagenome computing and analysis system based on the GPGPU supercomputer is: a supercomputer including GPGPU (general-purpose parallel processor) operating hardware (at least G80 or higher architecture), a CPU with at least two cores, and a computing speed of At least 2Ghz or more, memory at least 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 metagenome computing and analysis system based on the GPGPU supercomputer is: Linux operating system, pre-installed GCC operating environment, CUDA operating environment (above 3.0), and Parallel-META software version 1.0 or above. The operatin...

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Abstract

The invention relates to a high-performance metagenomic data analysis system on the basis of GPGPU (General Purpose Graphics Processing Units) and multi-core CPU (Central Processing Unit) hardware. Aiming at the condition that a conventional computer cannot meet the requirement on analysis of mass metagenomic data and according to the characteristic that the mass data in metagenomic data processing can be processed in parallel, the invention discloses a calculation analysis system which is on the basis of the GPGPU and the multi-core CPU hardware and combines software and hardware methods. A main module of the metagenomic calculation and analysis system on the basis of a GPGPU super computer comprises a GPGPU and multi-core CPU computer and a uniform software platform. The high-performance metagenomic data analysis system on the basis of the GPGPU and multi-core CPU hardware has the characteristics of (1) a high-performance parallel calculation and storage hardware system and (2) the high-performance uniform configurable software platform. Metagenomic sequence processing on the basis of the GPGPU hardware can obviously improve analysis efficiency of the metagenomic data.

Description

technical field [0001] The patent of the present invention relates to a computer analysis system combining software and hardware for bioinformatics metagenome data analysis, especially capable of rapidly analyzing massive metagenome data. Background technique [0002] Metagenome refers to the sum of all genetic information in the entire microbial community in a certain environment. Since the vast majority of microorganisms in nature are not yet cultivable, direct identification of the metagenome of the community is currently one of the most important and fastest methods for understanding the structure and function of the community. The collection and analysis of metagenomic data overcomes the shortcomings of traditional isolation and culture methods that are limited to cultivable components (generally only 1%) in the community, enabling the mining, understanding and utilization of non-cultivable components (the other 99%) It is possible to comprehensively study the structur...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/10
Inventor 宁康苏晓泉徐健
Owner QINGDAO INST OF BIOENERGY & BIOPROCESS TECH CHINESE ACADEMY OF SCI
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