Summary: We propose a C++ class library developed to the purpose of making the implementation of sequence analysis algorithms easier and faster when genomic annotations and variations need to be considered. The library provides a class hierarchy to seamlessly bind together annotations of genomic elements to sequences and to algorithm results; it allows to evaluate the effect of mutations/variations in terms of both element position shifts and of algorithm results, limiting recalculation to the minimum. Particular care has been posed to keep memory and time overhead into acceptable limits.

Cereda, M., Sironi, M., Cavalleri, M., Pozzoli, U. (2011). GeCo++: a C++ library for genomic features computation and annotation in the presence of variants. BIOINFORMATICS, 27(9), 1313-1315 [10.1093/bioinformatics/btr123].

GeCo++: a C++ library for genomic features computation and annotation in the presence of variants

Sironi M;
2011

Abstract

Summary: We propose a C++ class library developed to the purpose of making the implementation of sequence analysis algorithms easier and faster when genomic annotations and variations need to be considered. The library provides a class hierarchy to seamlessly bind together annotations of genomic elements to sequences and to algorithm results; it allows to evaluate the effect of mutations/variations in terms of both element position shifts and of algorithm results, limiting recalculation to the minimum. Particular care has been posed to keep memory and time overhead into acceptable limits.
Articolo in rivista - Articolo scientifico
Algorithms; Base Sequence; Gene Library; Genomics; Programming Languages; Sequence Alignment; Sequence Analysis, DNA; Software
English
2011
27
9
1313
1315
btr123
reserved
Cereda, M., Sironi, M., Cavalleri, M., Pozzoli, U. (2011). GeCo++: a C++ library for genomic features computation and annotation in the presence of variants. BIOINFORMATICS, 27(9), 1313-1315 [10.1093/bioinformatics/btr123].
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/10281/514620
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