Plot graph

gopu_36 · 11-15-2009, 09:57 PM

Hi,
I am new to NGS data handling.
I have a set of data which includes chromosome, base positiona nd number of reads covering that position. I would like to plot the graph. Do I have to use MATLAB or any other free packages available. I am not able to do it using excel because I to cover aorund 10MB region in chromosome1. Please let me know. Thanks.
Regards

simonandrews · 11-16-2009, 12:37 AM

Probably the easiest way to display this kind of file would be to use one of the public genome servers which allows you to upload your own data.

Depending on the format and type of your data it sounds like you might have a wig or bed-graph format file. Either of these can be uploaded to the UCSC browser to allow you to view this data against an annotated genome.

If you want more details about how to format and upload your data then you can get these from:

http://genome.ucsc.edu/goldenPath/he...enomeHelp.html

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11-15-2009, 09:57 PM	#1
gopu_36 Junior Member Location: India Join Date: Nov 2009 Posts: 1	Plot graph Hi, I am new to NGS data handling. I have a set of data which includes chromosome, base positiona nd number of reads covering that position. I would like to plot the graph. Do I have to use MATLAB or any other free packages available. I am not able to do it using excel because I to cover aorund 10MB region in chromosome1. Please let me know. Thanks. Regards

11-16-2009, 12:37 AM	#2
simonandrews Simon Andrews Location: Babraham Inst, Cambridge, UK Join Date: May 2009 Posts: 871	Probably the easiest way to display this kind of file would be to use one of the public genome servers which allows you to upload your own data. Depending on the format and type of your data it sounds like you might have a wig or bed-graph format file. Either of these can be uploaded to the UCSC browser to allow you to view this data against an annotated genome. If you want more details about how to format and upload your data then you can get these from: http://genome.ucsc.edu/goldenPath/he...enomeHelp.html