Hi Leonor, Yes, it is possible to export a list of SNPs from the command-line if you are using one of the snapshot releases available from here: http://gel.ahabs.wisc.edu/mauve/snapshots
The command-line syntax to do so is: java -cp Mauve.jar org.gel.mauve.analysis.SnpExporter -f aln.xmfa -o aln.snps Hope that helps, -Aaron On Wed, 2014-01-22 at 06:53 +1100, Leonor Sanchez wrote: > > Hi, > > > I was wondering if there was any way of using the module for > extracting the SNP list using the command line. I am working with > hundreds of alignments and I would find that very useful. I've read in > the list that other people were also asking for that some time ago but > I cannot find the answer. As the manual says, contigs can be reordered > using the terminal, is there also a instruction for the SNP list > extraction? > > > Thanks in advance! > > > > Leonor Sánchez > > > > > -- > Leonor Sánchez Busó > PhD student > CSISP - Centro Superior de Investigación en Salud Pública / Centre for > Public Health Research > Área de Genómica y Salud / Genomics and Health > Av. de Catalunya, 21 > 46020 Valencia, Spain > Tel: +34 - 961925967 (Ext. 925967) > sanchez_leo...@gva.es > > > > > > > -- > Leonor Sánchez Busó > PhD student > CSISP - Centro Superior de Investigación en Salud Pública / Centre for > Public Health Research > Área de Genómica y Salud / Genomics and Health > Av. de Catalunya, 21 > 46020 Valencia, Spain > Tel: +34 - 961925967 (Ext. 925967) > sanchez_leo...@gva.es > > -- Aaron E. Darling, Ph.D. Associate Professor, ithree institute University of Technology Sydney Australia http://darlinglab.org twitter: @koadman UTS CRICOS Provider Code: 00099F DISCLAIMER: This email message and any accompanying attachments may contain confidential information. If you are not the intended recipient, do not read, use, disseminate, distribute or copy this message or attachments. If you have received this message in error, please notify the sender immediately and delete this message. Any views expressed in this message are those of the individual sender, except where the sender expressly, and with authority, states them to be the views of the University of Technology Sydney. Before opening any attachments, please check them for viruses and defects. Think. Green. Do. Please consider the environment before printing this email. ------------------------------------------------------------------------------ CenturyLink Cloud: The Leader in Enterprise Cloud Services. Learn Why More Businesses Are Choosing CenturyLink Cloud For Critical Workloads, Development Environments & Everything In Between. Get a Quote or Start a Free Trial Today. http://pubads.g.doubleclick.net/gampad/clk?id=119420431&iu=/4140/ostg.clktrk _______________________________________________ Mauve-users mailing list Mauve-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mauve-users
