locus: Locus/Phylogenetic Marker Definition

Description Usage Arguments Value Author(s) See Also

Description

Creates a S4 class defining a phylogenetic marker for a megapteraProj.

Usage

1
2
locus(..., not, search.fields = c("gene", "title"),
   check = TRUE)

Arguments

...

a vector of mode character giving strings that should be seached for; the first element is taken to name the corresponding postgreSQL tables.

not

a vector of mode character giving strings that should be excluded from the search results; corresponds to the use of NOT in GenBank query.

search.fields

a vector of mode character setting the search fields (or attributes) of the Nucleotide database to be searched for the strings specified via the ... argument.

check

logical: if TRUE, the existance of a locus as specified by ... and not will be checked.

Value

an object of class locus

Author(s)

Christoph Heibl

See Also

dbPars, taxon, and megapteraPars for defining of database parameters, taxa, and the pipeline's parameters, respectively, and megapteraProj for the bundling of input data.



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