Question: How to describe this figure
1
gravatar for cfarmeri
4.6 years ago by
cfarmeri160
Japan
cfarmeri160 wrote:

Hi.
 

I would like to describe following figure that can compare between some TFs and Histon modifications enrichment on genome.

How do I get this figure? Furthermore, I would be glad if you tell me what name of this figure is.

Thanks!

http://www.factorbook.org/mediawiki/factordata/FactorBook_Heatmaps/Histone_Modification_Markers/A549_YY1_HAIB.png

chip-seq • 2.2k views
ADD COMMENTlink modified 4.1 years ago by Biostar ♦♦ 20 • written 4.6 years ago by cfarmeri160
2
gravatar for John
4.6 years ago by
John12k
Germany
John12k wrote:

This is a simple occupancy heatmap - Deeptools does a wonderful job at plotting these, and isn't as painful to use as other implementations.

ADD COMMENTlink written 4.6 years ago by John12k

Thanks!!
Deeptools seems useful to visualise.

The wiki page has polite descriptions.

I would like to try this.

 

ADD REPLYlink modified 4.6 years ago • written 4.6 years ago by cfarmeri160

You're very welcome - but full disclosure: I have not contributed a single line of code to this project!! If you find it useful you should thank the people who made it :)

ADD REPLYlink written 4.6 years ago by John12k

here you can find multiple heatmaps created using deepTools like the one in your example:

http://deeptools.readthedocs.org/en/latest/content/tools/plotHeatmap.html

ADD REPLYlink written 4.1 years ago by Fidel1.9k
1
gravatar for ivivek_ngs
4.6 years ago by
ivivek_ngs4.9k
Seattle,WA, USA
ivivek_ngs4.9k wrote:

You can use deeptools for the purpose which is really a great resource or you can also use HOMER which is also a suite of tools

http://homer.salk.edu/homer/chipseq/heatmap.html

ADD COMMENTlink written 4.6 years ago by ivivek_ngs4.9k

The HOMER also has other useful tools to NGS analysis.
Thank you for your advice!

ADD REPLYlink written 4.6 years ago by cfarmeri160
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