Difference between revisions of "Mitos"
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(Created page with "Category:SoftwareCategory:Phylogenetics {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|mitos}} |{{#vardefine:url|https://anaconda.org/bioconda/mitos}} <!--CONFIGUR...") |
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{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|mitos}} | |{{#vardefine:app|mitos}} | ||
| − | |{{#vardefine:url|https:// | + | |{{#vardefine:url|https://gitlab.com/Bernt/MITOS/}} |
<!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | <!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | ||
|{{#vardefine:conf|}} <!--CONFIGURATION--> | |{{#vardefine:conf|}} <!--CONFIGURATION--> | ||
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==System Variables== | ==System Variables== | ||
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory | ||
| − | * HPC_{{uc:{{#var:app}}}}_BIN - | + | * HPC_{{uc:{{#var:app}}}}_BIN - executable directory |
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
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If you publish research that uses {{#var:app}} you have to cite it as follows: | If you publish research that uses {{#var:app}} you have to cite it as follows: | ||
| − | Donath A, Jühling F, Al-Arab M, Bernhart SH, Reinhardt F, Stadler PF, Middendorf M, Bernt M. Improved annotation of protein-coding genes boundaries in metazoan mitochondrial genomes. Nucleic Acids Res. 2019 Nov 18;47(20):10543-10552. doi: 10.1093/nar/gkz833. PMID: 31584075; PMCID: PMC6847864. | + | Donath A, Jühling F, Al-Arab M, Bernhart SH, Reinhardt F, Stadler PF, Middendorf M, Bernt M. Improved annotation of protein-coding genes boundaries in metazoan mitochondrial genomes. Nucleic Acids Res. 2019 Nov 18;47(20):10543-10552. [https://doi.org/10.1093/nar/gkz833 doi: 10.1093/nar/gkz833]. PMID: 31584075; PMCID: PMC6847864. |
|}} | |}} | ||
Latest revision as of 14:08, 25 June 2024
Description
Annotate metazoan mitochondrial genomes with MITOS 2. Limited to genomes up to 50 kbp and 10 contigs.
Environment Modules
Run module spider mitos to find out what environment modules are available for this application.
System Variables
- HPC_MITOS_DIR - installation directory
- HPC_MITOS_BIN - executable directory
Citation
If you publish research that uses mitos you have to cite it as follows:
Donath A, Jühling F, Al-Arab M, Bernhart SH, Reinhardt F, Stadler PF, Middendorf M, Bernt M. Improved annotation of protein-coding genes boundaries in metazoan mitochondrial genomes. Nucleic Acids Res. 2019 Nov 18;47(20):10543-10552. doi: 10.1093/nar/gkz833. PMID: 31584075; PMCID: PMC6847864.