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BMC Bioinformatics. 2013 Jan 31;14:33. doi: 10.1186/1471-2105-14-33.

HTQC: a fast quality control toolkit for Illumina sequencing data.

Author information

1
CAS Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, NO,1 West Beichen Road, Chaoyang District, Beijing, China.

Abstract

BACKGROUND:

Illumina sequencing platform is widely used in genome research. Sequence reads quality assessment and control are needed for downstream analysis. However, software that provides efficient quality assessment and versatile filtration methods is still lacking.

RESULTS:

We have developed a toolkit named HTQC - abbreviation of High-Throughput Quality Control - for sequence reads quality control, which consists of six programs for reads quality assessment, reads filtration and generation of graphic reports.

CONCLUSIONS:

The HTQC toolkit can generate reads quality assessment faster than existing tools, providing guidance for reads filtration utilities that allow users to choose different strategies to remove low quality reads.

PMID:
23363224
PMCID:
PMC3571943
DOI:
10.1186/1471-2105-14-33
[Indexed for MEDLINE]
Free PMC Article

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