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IGVview

DeprecatedNGS related nodes for KNIME Workbench version 0.2.200.qualifier by Bernd Jagla, Institute Pasteur

For this to work IGV has to be opened. The correct reference genome has to be loaded and the port has to be configured correctly.
See http://www.broadinstitute.org/igv/ for further information on IGV.

Options

HTTP address: HTTP address of IGV installation. Usually 127.0.0.1 or localhost
Port: Port that is listening to request from IGV. This port can be set within IGV (view->preferences->advanced->Enable port)
Chromosome: Column with chromosome string. Has to be exactly like the one used in IGV.
Start position: Column name that holds the start position of the feature
Stop position: Column name that holds the stop position of the feature

Input Ports

: Chromosome, start, stop position

Views

TableWithLinks: Table view with right click link to IGV

Best Friends (Incoming)

Installation

To use this node in KNIME, install KNIME NGS tools from the following update site:

KNIME 4.3

A zipped version of the software site can be downloaded here.

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Developers

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