Difference between revisions of "MafFilter"
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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 - executable directory | ||
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<!--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: | ||
| − | [Dutheil JY, Gaillard S, Stukenbrock EH. BMC Genomics. 2014 Jan 22;15:53. MafFilter: a highly flexible and extensible multiple genome alignment files processor.] | + | [Dutheil JY, Gaillard S, Stukenbrock EH. BMC Genomics. 2014 Jan 22;15:53. MafFilter: a highly flexible and extensible multiple genome alignment files processor. https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-15-53] |
|}} | |}} | ||
Latest revision as of 17:01, 24 February 2020
Description
MafFilter is a program dedicated to the analysis of genome alignments. It parses and manipulates MAF files as well as more simple fasta files. Despite various filtering options and format conversion tools, MafFilter can compute a wide range of statistics (phylogenetic trees, nucleotide diversity, inferrence of selection, etc.)
Environment Modules
Run module spider maffilter to find out what environment modules are available for this application.
System Variables
- HPC_MAFFILTER_DIR - installation directory
- HPC_MAFFILTER_BIN - executable directory
Citation
If you publish research that uses maffilter you have to cite it as follows:
[Dutheil JY, Gaillard S, Stukenbrock EH. BMC Genomics. 2014 Jan 22;15:53. MafFilter: a highly flexible and extensible multiple genome alignment files processor. https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-15-53]