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CnD

A program to detect copy number variants from short read sequence data. The target organism is assumed to be inbred, and therefore homozygous, so regions of apparent heterozygous SNPs (as called by MAQ) can be used to detect copy number gains. cnD uses both the rate of these paralogous sequence variants, and the raw sequence depth, to call copy number gains and losses using a hidden markov model.

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CnD classification

CnD specifications

Software type:
Package/Module
Restrictions to use:
None
License:
GNU General Public License version 2.0
Stability:
Stable
Interface:
Command line interface
Operating system:
Unix/Linux
Computer skills:
Advanced
Maintained:
No

CnD distribution

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No versioning.

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Publications

Institution(s)

Wellcome Trust Sanger Institute, Hinxton, UK

Link to literature

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