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New! AutoSOME is now available in Cytoscape through clusterMaker (paper).

AutoSOME is a new unsupervised multidimensional clustering method for identifying clusters of diverse shapes and sizes from large numerical datasets without prior knowledge of cluster number (BMC Bioinformatics, 11:117). Given the general nature of data clustering, AutoSOME has utility for a wide range of applications, including whole-genome co-expression and transcriptome analysis.

AutoSOME is freely available for non-profit academic research. For commercial licensing inquiries or questions/problems with the AutoSOME software, please contact us.

Error in database connection :com.mysql.jdbc.CommunicationsException: Communications link failure due to underlying exception: ** BEGIN NESTED EXCEPTION ** java.net.ConnectException MESSAGE: Connection refused (Connection refused) STACKTRACE: java.net.ConnectException: Connection refused (Connection refused) at java.net.PlainSocketImpl.socketConnect(Native Method) at java.net.AbstractPlainSocketImpl.doConnect(AbstractPlainSocketImpl.java:339) at java.net.AbstractPlainSocketImpl.connectToAddress(AbstractPlainSocketImpl.java:200) at java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:182) at java.net.SocksSocketImpl.connect(SocksSocketImpl.java:392) at java.net.Socket.connect(Socket.java:580) at java.net.Socket.connect(Socket.java:529) at java.net.Socket.(Socket.java:429) at java.net.Socket.(Socket.java:242) at com.mysql.jdbc.StandardSocketFactory.connect(StandardSocketFactory.java:256) at com.mysql.jdbc.MysqlIO.(MysqlIO.java:271) at com.mysql.jdbc.Connection.createNewIO(Connection.java:2744) at com.mysql.jdbc.Connection.(Connection.java:1553) at com.mysql.jdbc.NonRegisteringDriver.connect(NonRegisteringDriver.java:285) at java.sql.DriverManager.getConnection(DriverManager.java:571) at java.sql.DriverManager.getConnection(DriverManager.java:215) at org.apache.jsp.index_jsp._jspService(index_jsp.java:347) at org.apache.jasper.runtime.HttpJspBase.service(HttpJspBase.java:70) at javax.servlet.http.HttpServlet.service(HttpServlet.java:723) at org.apache.jasper.servlet.JspServletWrapper.service(JspServletWrapper.java:377) at org.apache.jasper.servlet.JspServlet.serviceJspFile(JspServlet.java:313) at org.apache.jasper.servlet.JspServlet.service(JspServlet.java:260) at javax.servlet.http.HttpServlet.service(HttpServlet.java:723) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:290) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206) at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:233) at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:191) at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:127) at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102) at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109) at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:299) at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:857) at org.apache.coyote.http11.Http11Protocol$Http11ConnectionHandler.process(Http11Protocol.java:588) at org.apache.tomcat.util.net.JIoEndpoint$Worker.run(JIoEndpoint.java:489) at java.lang.Thread.run(Thread.java:748) ** END NESTED EXCEPTION ** Last packet sent to the server was 0 ms ago.