| mira(1) | General Commands Manual | mira(1) |
NAME¶
mira - The Genome and EST Sequence Assembly System
DESCRIPTION¶
The mira genome and RNA assembler is a specialised assembler for sequencing projects classified as 'hard' due to high number of similar repeats.
The assembler is routinely used for such various tasks as mutation detection in different cell types, similarity analysis of transcripts between organisms, and pristine assembly of sequences from various sources for oligo design in clinical microarray experiments.
The purpose of the mira executable is to assemble sequencing data.
SYNOPSIS¶
mira [OPTION] manifest_file [manifest_file] ...
OPTIONS¶
- -c / --cwd=directory
- Change working directory
- -h / --help
- Print short help and exit
- -m / --mcheck
- Only check the manifest file, then exit.
- -M / --mdcheck
- Only check the manifest file and presence of data files, then exit.
- -r / --resume
- Resume an interrupted assembly
- -t / --thread
- Force number of threads (overrides equivalent -GE:not manifest entry).
- -v / --version
- Print version and exit
SEE ALSO¶
A more extensive documentation is provided in the MIRA manual available online at
On Debian, this can be installed with the mira-doc package and can then be found at /usr/share/doc/mira-assembler/DefinitiveGuideToMIRA.html. On other systems, you may want to check in /usr/local/share/mira/doc or run "locate DefinitiveGuideToMIRA" to find it locally.
You can also subscribe one of the MIRA mailing lists at
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 ticketing system at:
AUTHOR¶
The author of the mira code is Bastien Chevreux <bach@chevreux.org>
This manual page was written by Andreas Tille <tille@debian.org> and Bastien Chevreux <bach@chevreux.org> but can be freely used for any other distribution.
| May 2016 | User Commands |