QDD：一个用户友好的程序，用于从大型测序项目中选择微卫星标记和设计引物。
QDD: a user-friendly program to select microsatellite markers and design primers from large sequencing projects.
机构信息
Aix-Marseille Université, CNRS, IRD, UMR 6116-IMEP, Equipe Evolution, Génome et Environnement, Centre Saint-Charles, Case 36, 3 Place Victor Hugo, 13331 Marseille Cedex 3, France.
出版信息
Bioinformatics. 2010 Feb 1;26(3):403-4. doi: 10.1093/bioinformatics/btp670. Epub 2009 Dec 10.
SUMMARY
QDD is an open access program providing a user-friendly tool for microsatellite detection and primer design from large sets of DNA sequences. The program is designed to deal with all steps of treatment of raw sequences obtained from pyrosequencing of enriched DNA libraries, but it is also applicable to data obtained through other sequencing methods, using FASTA files as input. The following tasks are completed by QDD: tag sorting, adapter/vector removal, elimination of redundant sequences, detection of possible genomic multicopies (duplicated loci or transposable elements), stringent selection of target microsatellites and customizable primer design. It can treat up to one million sequences of a few hundred base pairs in the tag-sorting step, and up to 50,000 sequences in a single input file for the steps involving estimation of sequence similarity.
AVAILABILITY
QDD is freely available under the GPL licence for Windows and Linux from the following web site: http://www.univ-provence.fr/gsite/Local/egee/dir/meglecz/QDD.html.
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
摘要
QDD 是一个开放获取程序，提供了一个用户友好的工具，用于从大量 DNA 序列中检测微卫星和设计引物。该程序旨在处理从富集 DNA 文库的焦磷酸测序获得的原始序列处理的所有步骤，但也可应用于通过其他测序方法获得的数据，使用 FASTA 文件作为输入。QDD 完成以下任务：标签排序、接头/载体去除、冗余序列消除、可能的基因组多拷贝（重复位点或转座元件）检测、目标微卫星的严格选择和定制引物设计。在标签排序步骤中，它最多可以处理数百万个几百个碱基对的序列，在涉及估计序列相似性的单个输入文件中，它最多可以处理 50000 个序列。
可用性
QDD 可根据 GPL 许可证在 Windows 和 Linux 下免费使用，可从以下网站获得：http://www.univ-provence.fr/gsite/Local/egee/dir/meglecz/QDD.html。
补充信息
补充数据可在 Bioinformatics 在线获得。
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