User: liux.bio
liux.bio • 280
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Posts by liux.bio
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... You can try [iRegulon][1], which is a cytoscape app.
[1]: http://apps.cytoscape.org/apps/iregulon ...
written 11 weeks ago by
liux.bio • 280
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Comment:
C: displaying graphs in R
... You can try [ggplot2][1].
[1]: https://ggplot2.tidyverse.org/ ...
written 11 weeks ago by
liux.bio • 280
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... ## First one ##
For the first question. I agree with you, Js and Django are different. But I think we can learn two techniques at the same time.
## Second one ##
As for combining Django and Angular. I mean that when we develop the app, we use Angular to develop front-end and use Django develop the b ...
written 11 weeks ago by
liux.bio • 280
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... In the last year, I developed a web server - [ExpressVis][2] - for analyzing and exploring expression profiling data. Here is my experience.
## Overview ##
According to your needs, the application should include a back-end (a server) and a front-end. The back-end receives a request from the fron ...
written 11 weeks ago by
liux.bio • 280
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... If you just want to color the nodes based on their fold-change in just one experimental group, I think Cytoscape mentioned by [Jean-Karim Heriche][1] can meet your needs. But if you want to color nodes in multiple groups, I recommend you to use [PPIExp][2]. In PPIExp, you can color nodes in multiple ...
written 12 weeks ago by
liux.bio • 280
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... You can try Cytoscape APP [Bingo][1]. It presents the hirarchical relationships of the GO terms. I often use it to find specific enriched GO terms.
Additionally, you can try [Revigo][2]. It summarize GO terms by removing redundant terms. It has awesome visualization.
If you want to explore enric ...
written 3 months ago by
liux.bio • 280
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... Maybe you could try [KeggExp][1]. Here is a example for highlight differentially-expressed genes:
![enter image description here][2]
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For more information about KeggExp, see the post [here][3]
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PS: I am the author of KeggExp
[1]: http://www.fgvis.com/KeggExp
[2]: http ...
written 3 months ago by
liux.bio • 280
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... Recently, I developed a web server - KeggExp - for visualizing KEGG pathway maps when analyzing expression profile data. With KeggExp, users can highlight up-expressed genes as red and down-expressed as green. It is available [here][1]. Additionally, I have posted a tool [here][2].
[1]: http:// ...
written 3 months ago by
liux.bio • 280
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... For the first bug, the browser should be allowed to download multiple files simultaneously.
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For the second bug, heatmap is designed to not to show negative value. The expression profile data should be processed data, in which the fold change of one gene between group A and group B co ...
written 3 months ago by
liux.bio • 280
4
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6 follow
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Tool:
KeggExp: a web server for visualizing KEGG pathways maps when analyzing expression profile data
... ## Overview ##
KeggExp is a biologist-friendly web server to integrate KEGG pathways and expression profile data (data generated by Microarray, RNA-seq, or mass spectrometry). It aims to adopt interactive visualization techniques to help researchers find key kegg pathways or genes that are worth fur ...
written 3 months ago by
liux.bio • 280
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