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"
}