NAME

       miraSearchESTSNPs - Pipeline to discover SNPs in ESTs from different strains

DESCRIPTION

       The  program miraSearchESTSNPs can be used for assembly of EST data from different strains
       (or organisms) and SNP detection within this assembly.  This is the former miraEST program
       which was renamed as many people got confused regarding whether to use MIRA in est mode or
       miraEST.

       miraSearchESTSNPs is a pipeline that reconstructs the pristine mRNA  transcript  sequences
       gathered in EST sequencing projects of more than one strain, which can be a reliable basis
       for subsequent analysis steps like clustering or exon analysis. This means that even genes
       that  contain only one transcribed SNP on different alleles are first treated as different
       transcripts. The optional last step of the assembly process can be configured as a  simple
       clusterer  that  can  assemble  transcripts  containing the same exon sequence -- but only
       differ in SNP positions -- into one consensus sequence. Such SNPs can  then  be  analysed,
       classified  and  reliably  assigned  to  their  corresponding mRNA transcriptome sequence.
       However, it is important to note that miraSearchESTSNPs is an assembler  and  not  a  full
       blown clustering tool.

SYNOPSIS

       In version 3.9.17 this functionality is deactivated.

SEE ALSO

       A  more  extensive  documentation  is provided in the mira-doc package and can be found at
       /usr/share/doc/mira-assembler/DefinitiveGuideToMIRA.html.

       You can also subscribe one of the MIRA mailing lists at

              http://www.chevreux.org/mira_mailinglists.html

       After subscribing, mail general questions to the MIRA talk mailing list:

              mira_talk@freelists.org

BUGS

       To report bugs or ask for features, please use the new ticketing system at:

              http://sourceforge.net/apps/trac/mira-assembler/

AUTHOR

       The author of the mira code is Bastien Chevreux <bach@chevreux.org>

       This manual page was written by Andreas Tille <tille@debian.org> but can  be  freely  used
       for any other distribution.