osFP
osFP is a web server for predicting the oligomeric state of fluorescent proteins.
Prerequisites
Before beginning, please make sure to install the following R packages: shiny, shinyjs and shinythemes, protr, seqinr, RWeka and markdown which can be performed by typing the following commands into an R environment:
install.packages(c('shiny','shinyjs','shinythemes','protr','seqinr','RWeka','markdown'))
Launching the application
To launch the application on your own local computer, in an R environment, type the following:
shiny::runGitHub('osfp','chaninn')
In a few moments, the application should launch from your web browser.
Using the application
To use the application:
Step 1. Before starting, please wait until you see the following message in the Status/Output text box:
[1] "Server is ready for prediction. Please insert/upload sequence in FASTA format"
Step 2. Paste your sequences in FASTA format into the text box or Upload your input FASTA files Step 3. The prediction results will appear in the Status/Output box. Users can also download the prediction results in CSV file format by clicking on the Download button.
Citing this work
If you find the osFP web server useful, please cite:
Simeon S, Shoombuatong W, Anuwongcharoen N, Preeyanon L, Prachayasittikul V, Wikberg JES, Nantasenamat C. osFP: a web server for predicting the oligomeric states of fluorescent proteins. Journal of Cheminformatics 8 (2016) 72.
The BibTex reference format is given below:
@article{Simeon2016osFP,
author="Simeon, Saw
and Shoombuatong, Watshara
and Anuwongcharoen, Nuttapat
and Preeyanon, Likit
and Prachayasittikul, Virapong
and Wikberg, Jarl E. S.
and Nantasenamat, Chanin",
title="osFP: a web server for predicting the oligomeric states of fluorescent proteins",
journal="Journal of Cheminformatics",
year="2016",
volume="8",
number="1",
pages="72",
issn="1758-2946",
doi="10.1186/s13321-016-0185-8",
url="http://dx.doi.org/10.1186/s13321-016-0185-8"
}