https://github.com/compomics/icelogo

Next-generation visualization of protein consensus sequences by iceLogo.
https://github.com/compomics/icelogo

Last synced: about 2 months ago
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Next-generation visualization of protein consensus sequences by iceLogo.

• Host: GitHub
• URL: https://github.com/compomics/icelogo
• Owner: CompOmics
• Created: 2015-03-31T12:25:39.000Z (about 11 years ago)
• Default Branch: master
• Last Pushed: 2022-06-20T23:07:23.000Z (almost 4 years ago)
• Last Synced: 2025-09-10T05:11:37.047Z (7 months ago)
• Language: Java
• Homepage:
• Size: 5.44 MB
• Stars: 3
• Watchers: 14
• Forks: 6
• Open Issues: 3
• Metadata Files:
  • Readme: README.md
  • License: LICENSE-2.0.txt

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README

          
# iceLogo

![logo](http://genesis.ugent.be/uvpublicdata/icelogo/iceLogo.jpg) 

 * [Project Description](#project-description)

 * [IceLogo Server](#icelogo-server)

 * [Downloads](#downloads)

 * [Usage](#usage)

 * [Project Support](#project-support)

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## Project Description

IceLogo builds on probability theory to visualize significant conserved sequence patterns in multiple peptide sequence alignments against background (reference) sequence sets that can be tailored to the studied system and the used protocol. The unique advantages of iceLogo compared to other sequence logo creating tools is that iceLogo has a more dynamic nature and is more correct and complete in the analysis of conserved sequence patterns.

*Colaert and Helsens et al. Improved visualization of protein consensus sequences by iceLogo. Nature methods (2009) vol. 6 (11) pp. 786-7

([http://www.ncbi.nlm.nih.gov/pubmed/19876014 pid: 19876014])*

[Go to top of page](#icelogo)

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## IceLogo Server

The iceLogo web application is hosted on http://iomics.ugent.be/icelogoserver/. The iceLogo server project can be found [here](https://github.com/compomics/icelogoserver). 

[Go to top of page](#icelogo)

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## Downloads

Download iceLogo [here](https://github.com/compomics/icelogo/releases/download/v1.3.8/icelogo-1.3.8.zip).

### Example Files

  * [Human granzyme B substrate sample set](http://genesis.ugent.be/uvpublicdata/icelogo/grB.txt) (Van Damme et al., MCP 2009)

  * [NatA example dataset - 163 NatA targets were confirmed by a NatA knockout model](http://genesis.ugent.be/uvpublicdata/icelogo/NatA_confirmed.txt) (Arnesen et al., PNAS 2009)

[Go to top of page](#icelogo)

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## Usage

Download the manual [here](https://github.com/compomics/icelogo/blob/master/manual/iceLogo.pdf).

[Go to top of page](#icelogo)

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## Project Support

The iceLogo project is grateful for the support by:

| Compomics | VIB | Ghent University|

|:--:|:--:|:--:|

| [![compomics](http://genesis.ugent.be/uvpublicdata/image/compomics.png)](http://www.compomics.com) | [![vib](http://genesis.ugent.be/uvpublicdata/image/newVIBLogo.png)](http://www.vib.be) | [![ugent](http://genesis.ugent.be/uvpublicdata/image/newUgent.jpg)](http://www.ugent.be/en) |

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| IntelliJ | Netbeans | Java | Maven |

|:--:|:--:|:--:|:--:|

| [![intellij](http://genesis.ugent.be/uvpublicdata/image/icon_IntelliJIDEA.png)](https://www.jetbrains.com/idea/) | [![netbeans](https://netbeans.org/images_www/visual-guidelines/NB-logo-single.jpg)](https://netbeans.org/) | [![java](http://genesis.ugent.be/uvpublicdata/image/java.png)](http://java.com/en/) | [![maven](http://genesis.ugent.be/uvpublicdata/image/maven.png)](http://maven.apache.org/) |

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