:: DESCRIPTION
Magnolya is an algorithm for de novo detection of copy number variation. Magnolya directly compares two next-generation sequencing datasets.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2012 Oct 9. [Epub ahead of print]
De novo detection of copy number variation by co-assembly.
Nijkamp JF, van den Broek MA, Geertman JM, Reinders MJ, Daran JM, de Ridder D.
:: DESCRIPTION
The JointSLM R package allows one to simultaneously analyse multiple Depth Of Coverage (DOC) genomic profiles.
::DEVELOPER
the Computational Biology research group in Florence
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Nucleic Acids Res. 2011 May;39(10):e65. doi: 10.1093/nar/gkr068. Epub 2011 Feb 14.
Detecting common copy number variants in high-throughput sequencing data by using JointSLM algorithm.
Magi A, Benelli M, Yoon S, Roviello F, Torricelli F.
:: DESCRIPTION
ExomeCNV, a statistical method to detect CNV and LOH using depth-of-coverage and B-allele frequencies, from mapped short sequence reads.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2011 Oct 1;27(19):2648-54. doi: 10.1093/bioinformatics/btr462. Epub 2011 Aug 9.
Exome sequencing-based copy-number variation and loss of heterozygosity detection: ExomeCNV.
Sathirapongsasuti JF, Lee H, Horst BA, Brunner G, Cochran AJ, Binder S, Quackenbush J, Nelson SF.
:: DESCRIPTION
CNViewer is a user-friendly tool for analysis and comparison of Copy Number Variation (CNV). It presents several functionalities such as add sensitive (usually clinical/phenotypic) data, export module, selection of genomic region of interest and supports three methods to input data.
::DEVELOPER
Cintia C. Palu
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
CNVision is designed to simplify all stages of predicting and analyzing CNVs, from running prediction algorithms and combining their results to visualizing the raw data and designing qPCR primers for confirmation.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
QuantiSNP is an analytical tool for the analysis of copy number variation using whole genome SNP genotyping data. In its first implementation it was developed for data arising from Illumina® platforms
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Reference:
Nucleic Acids Res. 2007;35(6):2013-25. Epub 2007 Mar 6.
QuantiSNP: an Objective Bayes Hidden-Markov Model to detect and accurately map copy number variation using SNP genotyping data.
Colella S, Yau C, Taylor JM, Mirza G, Butler H, Clouston P, Bassett AS, Seller A, Holmes CC, Ragoussis J.
:: DESCRIPTION
CNVDetector is a program for locating copy number variations in a single genome using array CGH data. This program can detect the aberration regions in the array CGH data and output as a tabbing file.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Chen, P.-A., Liu, H.-F., Chao, K.-M., 2008,
“CNVDetector: Locating Copy Number Variations Using Array CGH Data“,
Bioinformatics, 24: 2773-2775.
