locus-class


Class for genetic input parameters for <code><a rd-options="" href="/link/megapteraProj?package=megaptera&version=1.0-0" data-mini-rdoc="megaptera::megapteraProj">megapteraProj</a></code>.


Given a set of taxa and marker, the goal is build a complete and correct sequence alignment for phylogenetic analysis.

Christoph Heibl

megaptera

MEGAPhylogeny Techniques in R

locus-class function

Objects can be created by calls of the form <code>locus(..., not, search.fields = c("gene", "title"))</code>.

Objects from the Class

<dl>
 <dt>sql</dt><dd>
a vector of mode <code>character</code> holding a SQL-compatible transformation of the first alias for naming database tables.
</dd> <dt>aliases</dt><dd>
a vector of mode <code>character</code> giving strings that should be seached for; the first element is taken to name the corresponding postgreSQL tables.
</dd> <dt>not</dt><dd>
a vector of mode <code>character</code> giving strings that should be excluded from the search results; corresponds to the use of <code>NOT</code> in GenBank query.
</dd> <dt>search.fields</dt><dd>
a vector of mode <code>character</code> setting the search fields (or attributes) of the Nucleotide database to be searched for the strings specified via the ... argument.
  </dd> </dl> 

locus-class: Class "locus"

Description

Arguments

Objects from the Class

Slots

See Also