whop.go.connect

Optional override for the hostname of the database server; default "mysql.ebi.ac.uk"

althost

Optional override for the port to connect to on the database server; default 4085

altport

Optional override for the username to authenticate with; default "go_select" 

altuser

Optional override for the password to authenticate with; default "amigo"

altpass

Optional override for the database name to connect to;default "go_latest"

altdb

Optional override for the DBMS driver to use;default "MySQL"

altdbdrivername

Optional hint which R package provides the DBMS driver (e.g. " RMySQL" for the MySQL DBMS driver) 

dbdrvpkgnam


Establish a connection to the AmiGO database servers or an arbitrary one with
the same database schema as the AmiGO DB.


Provides very fast access to whole genome, population scale variation data
from VCF files and sequence data from FASTA-formatted files.
It also reads in alignments from FASTA, Phylip, MAF and other file formats.
Provides easy-to-use interfaces to genome annotation from UCSC and Bioconductor and gene ontology data
from AmiGO and is capable to read, modify and write PLINK .PED-format pedigree files.

whop.go.connect: Establish a connection to the AmiGO database servers

Description

Usage

Arguments

Value

References