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BioCocoa specifications


Unique identifier OMICS_19790
Name BioCocoa
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Objective-C
Computer skills Advanced
Version 2.2.2
Stability Stable
Source code URL
Maintained Yes


No version available


Additional information

BioCocoa citations


A method for identification of highly conserved elements and evolutionary analysis of superphylum Alveolata

BMC Bioinformatics
PMCID: 5028923
PMID: 27645252
DOI: 10.1186/s12859-016-1257-5

[…] method with 8-bp words to identify and analyze uces of at least 100 bp in plants and to expand the uce sets in vertebrates., christley et al. [] offered a public domain software embedded into the biococoa library. it is based on a combinatorial algorithm that considers pairs of genomes using suffix arrays, after which the intersection is taken for all pairs; no alignments are involved. […]


Multiple organism algorithm for finding ultraconserved elements

BMC Bioinformatics
PMCID: 2244594
PMID: 18186941
DOI: 10.1186/1471-2105-9-15

[…] analyses that can take advantage of the genome in the suffix array data structure, thus providing a suite of comparative tools for use with multiple organisms., we have provided our algorithm in the biococoa library which is the de facto objective-c bioinformatics framework instead of starting a new software package. the main functionality is provided in two objective-c classes, bcsuffixarray […]

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