JABAWS 2
-JABAWS is free software which provides web services for prediction of protein disorder, multiple sequence alignment and amino acid conservation conveniently packaged to run on your local computer, server or cluster. JABAWS v2.0 includes new disorder prediction services based on DisEMBL, IUPred, Ronn, GlobPlot and protein sequence alignment conservation measures calculated by AACon. A new multiple sequence alignment service for Clustal Omega is also provided, in addition to standard JABAWS:MSA services for Clustal W, MAFFT, MUSCLE, TCOFFEE and PROBCONS. -JABA Web Services can be accessed from the Jalview desktop application and provide multiple alignment and sequence analysis calculations limited only by your own local computing resources.
- +JABAWS 2.0.1
+JABAWS
+is free software which provides web services for multiple sequence alignment
+(programs available: Clustal Omega, Clustal W,
+MAFFT, MUSCLE,
+, TCOFFEE and PROBCONS),
+prediction of protein disorder (programs available: DisEMBL, IUPred,
+Ronn, GlobPlot),
+and amino acid conservation (program available: AACon)
+conveniently packaged to run on your local computer, server or cluster.
+
+JABA Web Services can be accessed from the Jalview desktop application and provide multiple alignment
+and sequence analysis calculations limited only by your own local computing resources.
+
+Please note that JABAWS 2.0.1 is supported by Jalview 2.8 onwards. You can also access all JABAWS 2.0.1 services through the JABAWS command-line client.
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+ For Users
- The Server: JABAWS Virtual Appliance: (520M)
- or use JABAWS on Amazon Webservices Cloud
- The Client: Jalview (18M) - To use JABA Web Services on most operating systems, just download and install the JABAWS Virtual Appliance (VA) or even easier - just start JABAWS machine on the cloud and point Jalview at it! + The Server: JABAWS Virtual Appliance: (440M) + or JABAWS on Amazon Webservices Cloud+ The Main Client: Jalview (18M) + To use JABA Web Services on most operating systems, just download and install + the JABAWS Virtual Appliance (VA) or even easier - just start JABAWS machine on the cloud and point Jalview at it! |
- For System Administrators
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- The Server: JABAWS Web Application aRchive (55M) -JABAWS requires a Servlet 2.4 compatible servlet container like Apache-Tomcat to run. Please check the quick start guide for installation instructions. - |
+
- For Bioinformaticians/Developers
-The Server: JABAWS Web Application aRchive (55M)
+ For Bioinformaticians/Developers
+The Server: JABAWS Web Application aRchive (55M)
- The Client: - Command Line Client binary | source - - - - You can either use the JABAWS Virtual Appliance or the JABAWS Web Application aRchive (WAR) from your own computer or a lab server. The WAR version gives greater flexibility but requires a bit more configuration. Alternatively you can just script against our public server (see below) with the command line client or you own script. + Command Line Client binary | source + + +You can either use the JABAWS Virtual Appliance or the JABAWS Web Application aRchive (WAR) from your own computer or a lab server. +The WAR version gives greater flexibility but requires a bit more configuration. Alternatively you can just script against our public +server (see below) with the command line client or you own script. Check out the quick start guide for further details. - |
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Public JABAWS Server
- You can access our public JABA Web Services with our command line client, Jalview, or with your own program. Jalview is configured to use this public JABAWS server by default.
You can access our public JABA Web Services with our command line client, + Jalview, or with your own program. Jalview version 2.8 or later is fully compatible with JABAWS 2.0.1. + The latest versions of Jalview are configured to use public JABAWS server by default.
- The JABAWS public web services address is http://www.compbio.dundee.ac.uk/jabaws
- A detailed web services description is available from here: WSDL List
These web services will reject submissions containing more then one thousand sequences. Should you find this to be insufficient for your needs, or if you are concerned about privacy or on an unreliable network connection, then you can download and run the JABAWS Server on your own hardware.
- - +These web services accept submissions of less than one thousand sequences. Should you find this to be insufficient for your needs, + or if you are concerned about privacy or on an unreliable network connection, then you can + download and run the JABAWS Server on your own hardware.
+Previous versions of JABAWS
+Old JABAWS version is available here: + http://www.compbio.dundee.ac.uk/jabaws1 and + http://www.compbio.dundee.ac.uk/jabaws2. + We advise you to update to the JABAWS 2.0.1 as this version is fully backward compatible with JABAWS v1.0 and v2.0 and + contain numerous improvements. Please consult the manual for more information + on versions compatibility. +
Reference
-Peter V. Troshin, James B. Procter and Geoffrey J. Barton - "Java Bioinformatics Analysis Web Services for Multiple Sequence Alignment - JABAWS:MSA" Bioinformatics 2011; doi: 10.1093/bioinformatics/btr304.
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