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Open Access Highly Accessed Research article

Using quality scores and longer reads improves accuracy of Solexa read mapping

Andrew D Smith, Zhenyu Xuan and Michael Q Zhang*

  • * Corresponding author: Michael Q Zhang mzhang@cshl.edu

  • † Equal contributors

Author Affiliations

Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11274, USA

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BMC Bioinformatics 2008, 9:128  doi:10.1186/1471-2105-9-128

Published: 28 February 2008

Additional files

Additional file 1:

Mapping performance comparison by using either chr6 or its COX alterantive haplotype. Comparing the mapping performance for RMAPM and RMAPQ when using either chr6 or its COX alterantive haplotype assembly.

Format: XLS Size: 15KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 2:

Reads mapped in genome and BACs by using different mapping criteria. Number of reads mapped to genome and BACs by using RMAPM or RMAPQ with different read length and maximum number of allowed mismatches.

Format: XLS Size: 34KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 3:

Mapping performance comparison with MAQ. Comparing the mapping performance between RMAPM, RMAPQ with MAQ by using different read length.

Format: PDF Size: 11KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 4:

Counting mismatches between reads and genomic sequence. The method used for counting mismatches between reads and genomic sequence.

Format: PDF Size: 18KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data