Web services

A variety of web services are available from the Alignment window's Web Service menu.

Jalview's distributed computations are SOAP based services exposing protein sequence alignment and secondary structure prediction programs. These services actually run on the cluster based in the School of Life Sciences, University of Dundee, and are maintained by the Barton group.

Web Service Dialog Box

This dialog box is displayed when a web service job is submitted. It gives the name of the service and any method citation information, and monitors the progress of the calculation. The cancel button will permanently cancel the job, but this is only possible for some services.

Current services:

Multiple Sequence Alignment Services
• ClustalW Multiple Alignment and re-alignment
  The clustal W service remains one of the more popular Jalview features.
• Muscle Multiple Alignment
  High Quality and High Throughput multiple alignments of proteins. This method can sometimes be more accurate than ClustalW when dealing with diverse sets of sequences.
• MAFFT
  Multiple Alignment with Fast Fourier Transforms - a highly accurate and high throughput dna and amino acid alignment method, performing at least as well as ClustalW and Muscle.
• Secondary Structure Prediction
  • JNet
    This is a front end to the existing JNet www server allowing single sequence or profile based prediction.

Watch this space! These are some of the services planned to be released soon:

• Repeat analysis
• Remote Homology Detection