kpathwayprojector

 

Function

Mapping experimental data on PathwayProjector

Description

kpathwayprojector maps experimental data, such as transcriptomics, proteomics or metabolomics on Pathway Projector.

Pathway Projector provides integrated pathway maps that are based upon the KEGG Atlas, with the addition of nodes for genes and enzymes, and is implemented as a scalable, zoomable map. Users can search pathway-related data using keywords, molecular weights, nucleotide sequences, and amino acid sequences, or as possible routes between compounds. In addition, experimental data from transcriptomic, proteomic, and metabolomic analyses can be readily mapped.

Pathway Projector is provided by Institute for Advanced Biosciences. Original web service is located at the following URL:

http://www.g-language.org/PathwayProjector/

This tools is a subset of Keio Bioinformatics Web Service (KBWS) package, which contains interfaces to bioinformatics web services through a proxy server at Keio University. kprotpars is thus an interface of "map2PathwayProjector" method included in KBWS SOAP service. This method can be alternatively accessed directly from programming languages as SOAP web service. Please refer to the KBWS online documentations http://www.g-language.org/kbws/ for more information.

Usage


   Here is a sample session with kprotpars

% kpathwayprojector
Mapping experimental data on PathwayProjector
Input (gapped) sequence(s): infile.dat

Pathway Projector's URL : http://ws.g-language.org/g4/main.cgi?diaAtabareaname=1&flag=6831094
Image File : http://soap.g-language.org/12547145.png



Command line arguments

Qualifier Type Description Allowed values Default
Standard (Mandatory) qualifiers
[-infile]
(Parameter 1)
infile (no help text) infile value Input file 2
Additional (Optional) qualifiers
(none)
Advanced (Unprompted) qualifiers
(none)

Input file format

Input files for usage example

File: sample.dat

Organism:eco
pgk,red

Output file format

kpathwayprojector outputs two URLs.

Data files

Notes

References


Warnings

None.

Exit status

It always exits with a status of 0.

Known bugs

None.

See also

Program name Description

Author(s)

Kazuki Oshita (cory @ g-language.org) Institute for Advanced Biosciences, Keio University 252-8520 Japan

History

2010 - Written by Kazuki Oshita

Target users

This program is intended to be used by everyone and everything, from naive users to embedded scripts.

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