TURNIP ( Tracking UnResolved Nucleotide Polymorphisms.) comprises a set of Perl scripts to aid detection of partial SNPs (‘pSNP’), SNPs and indels from unassembled regions of a genome. It is suited to relatively short (10kb – 50kb) regions of DNA, and is able to find sites of microheterogeneity that would otherwise be dismissed through lack of awareness of their existence, or as sequencing error.
- Linux/windows/ MacOsX
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Davey R.P., James, S.A., Dicks, J. and Roberts I.N.
TURNIP: tracking unresolved nucleotide polymorphisms in large hard-to-assemble regions of repetitive DNA sequence.
Bioinformatics. 2010 Nov 15;26(22):2908-9