rppa.load: Load a RPPA slide from MIRACLE

Description Usage Arguments Examples

Description

This function loads a RPPA slide from MIRACLE using one of the following as input: a connection object obtained with rppa.authenticate together with either barcode or slideIndex or a securityToken where user authentication is completly omitted. In addition we need to specify MIRACLE's URL as baseUrl, specify signal filter options and optionally correct for block shifts in the process.

Usage

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rppa.load(connection = NULL, barcode = NA, slideIndex = NA,
  securityToken = NA, baseUrl = "http://localhost:8080/MIRACLE/spotExport/",
  filter.diameter = T, filter.neg.values = T, filter.flag = T,
  apply.shifts = T)

Arguments

connection

RCurl connection object obtained through rppa.authenticate

barcode

Barcode of the slide

slideIndex

Database ID of the slide in MIRACLE

securityToken

UUID of the slide used for secure access without connection

baseUrl

URL pointing to the spotExport controller of the used MIRACLE instance

filter.diameter

if true filter spots with diameter > 200 (set to NA)

filter.negative

if true filter negative values (set to NA)

filter.flag

if true filter flagged values, e.g. where flag property is not 0 (set to NA)

apply.shifts

if true apply horizontal and vertical shifts

Examples

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baseUrl <- "http://192.168.0.1:8080/MIRACLE/spotExport/"
conn <- rppa.authenticate(user="mlist", password="xxx", baseUrl=baseUrl)
rppa.load(connection=conn, slideIndex=1, baseUrl=baseUrl)
rppa.load(connection=conn, barcode="ABCD")
rppa.load(securityToken="abcd-xzft-djfk-2345")

NanoCAN/Rmiracle documentation built on May 7, 2019, 6:05 p.m.