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IGVview

This Node Is Deprecated — This node is kept for backwards-compatibility, but the usage in new workflows is no longer recommended. The documentation below might contain more information.

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

Output Ports

This node has no output ports

Popular Predecessors

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Views

TableWithLinks: Table view with right click link to IGV

Workflows

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Developers

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Installation

To use this node in KNIME, install the extension KNIME NGS tools from the below update site following our NodePit Product and Node Installation Guide:

v4.6

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

Plugin provider: Bernd Jagla, Institute Pasteur

Plugin version: 0.2.300.qualifier

On NodePit since: 2022-06-11

Last update: 2023-06-08

Tags: Deprecated

KNIME versions: From v3.6 to v4.6