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BMC Bioinformatics. 2008 May 28;9:250. doi: 10.1186/1471-2105-9-250.

TileQC: a system for tile-based quality control of Solexa data.

Author information

1
Department of Zoology and Center for Genome Research and Biocomputing, Oregon State University, Corvallis, Oregon 97331, USA. dolanp@science.oregonstate.edu

Abstract

BACKGROUND:

Next-generation DNA sequencing technologies such as Illumina's Solexa platform and Roche's 454 approach provide new avenues for investigating genome-scale questions. However, they also present novel analytical challenges that must be met for their effective application to biological questions.

RESULTS:

Here we report the availability of tileQC, a tile-based quality control system for Solexa data written in the R language. TileQC provides a means of recognizing bias and error in Solexa output by graphically representing data generated by flow cell tiles. The data represented in the images is then made available in the R environment for further analysis and automation of error detection.

CONCLUSION:

TileQC offers a highly adaptable and powerful tool for the quality control of Solexa-based DNA sequence data.

PMID:
18507856
PMCID:
PMC2443380
DOI:
10.1186/1471-2105-9-250
[Indexed for MEDLINE]
Free PMC Article

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