sagetagbylocation: Find SAGE Tags that are located in a specified genomic...

Description Arguments Value

Description

Find SAGE Tags that are located in a specified genomic region.

Arguments

chromosomeOptional2

Chromosome Provide one or more values. Use comma as a delimter.

sequenceId

Enter an identifier for a genomic sequence. The IDs correspond to the accession numbers in the GenBank records supplied by the sequencing centers. Wild cards are permitted in most queries, i.e. use AAEE* to ask for all <i> C.parvum </i> contigs. Genes By Chromosomal Location does not allow wildcards.

start_point

Select the distance (in nucleotides) to the start

end_point

Select the nucleotide you would like to end in. Note that 0 equals the end so you can get genes right up to the end of the sequence. The default settings start = 1 and end = 0 will give you results from the entire sequence.

is_within_gene_not

SAGE Tags are short sequences and can align to several geomic coordinates. Choose Yes to restrict to SAGE tags falling within a gene.

o-fields

Single valued attributes of the feature. Provide one or more values. Use comma as a delimter.

o-tables

Multi-valued attributes of the feature. Provide one or more values. Use comma as a delimter.

.convert

a logical value or a function that controls how the result of the method is returned. If this is a function, the character string or raw vector is passed to this function and it converts it appropriately. If this is a logical value and TRUE, then we attempt to convert the result based on its Content-Type returned by the Web server. If this is FALSE, the value from the Web server is returned as is.

.url

the URL for the Web request. This defaults to the correct value, but can be specified by the caller if the method is available at a different URL, e.g. locally or in a mirror server.

.json

a logical value controlling whether to use the JSON or the XML version of the method

Value

text/xml text/plain


duncantl/REuPathDB documentation built on May 15, 2019, 5:28 p.m.