COSINE specifications


Unique identifier OMICS_18977
Alternative name ClOse-range Spectral ImagiNg of lEaves
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Shell (Bash)
Computer skills Advanced
Stability Stable
Maintained Yes




No version available


  • person_outline Wing Hung Wong

Additional information

Publication for ClOse-range Spectral ImagiNg of lEaves

COSINE citations


Bflinks: Reliable Bugfix Links via Bidirectional References and Tuned Heuristics

PMCID: 4897393
PMID: 27433506
DOI: 10.1155/2014/701357

[…] he description and comments in the bugtracker entry. For the latter, ReLink employs stemming, stop-word elimination, and thesaurus-based word unification to reduce the vocabulary and then applies the cosine text similarity metric. The idea is that if no bug ID is provided in the commit message, it will instead talk about topics (such as failure symptoms or class or method identifiers) that are als […]


Robust discovery of periodically expressed genes using the laplace periodogram

BMC Bioinformatics
PMCID: 2650682
PMID: 19134222
DOI: 10.1186/1471-2105-10-15

[…] to fit the data to a linear combination of sinusoids of various frequencies. A gene is then represented as a point in a multidimensional space whose coordinates are given by its coefficients for the cosine and sine functions. The strength of periodicity of the expression of a gene is determined by the distance of the point from the origin. In [], periodic time-course gene expression are modeled b […]

COSINE institution(s)
Department of Electrical Engineering, School of Engineering, Stanford University, Stanford, CA, USA; Department of Statistics and Department of Biomedical Data Science, Stanford University, Stanford, CA, USA
COSINE funding source(s)
Supported by National Institutes of Health [R01HG007834].

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