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.