Difference between revisions of "FastGEAR"
Jump to navigation
Jump to search
Moskalenko (talk | contribs) |
|||
| (2 intermediate revisions by 2 users not shown) | |||
| Line 1: | Line 1: | ||
| − | [[Category:Software]][[Category: | + | [[Category:Software]][[Category:Biology]][[Category:Genomics]] |
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|fastgear}} | |{{#vardefine:app|fastgear}} | ||
| Line 5: | Line 5: | ||
<!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | <!--CONFIGURATION: OPTIONAL (|1}} means it's ON)--> | ||
|{{#vardefine:conf|}} <!--CONFIGURATION--> | |{{#vardefine:conf|}} <!--CONFIGURATION--> | ||
| − | |{{#vardefine:exe|}} <!--ADDITIONAL INFO--> | + | |{{#vardefine:exe|1}} <!--ADDITIONAL INFO--> |
|{{#vardefine:job|}} <!--JOB SCRIPTS--> | |{{#vardefine:job|}} <!--JOB SCRIPTS--> | ||
|{{#vardefine:policy|}} <!--POLICY--> | |{{#vardefine:policy|}} <!--POLICY--> | ||
| Line 34: | Line 34: | ||
{{#if: {{#var: exe}}|==Additional Information== | {{#if: {{#var: exe}}|==Additional Information== | ||
| − | + | Run fastGear in your job script as | |
| + | |||
| + | fastGear <INPUT_FILE> <OUTPUT_FILE> <INPUT_SPECS_FILE> | ||
| + | |||
| + | '''Note:''' <OUTPUT_FILE> must have a '.mat' extension as required in the [https://users.ics.aalto.fi/~pemartti/fastGEAR/fastGEAR_manual.pdf manual]. | ||
|}} | |}} | ||
Latest revision as of 20:13, 18 October 2022
Description
FastGEAR is a software for analyzing sequence alignments.
Environment Modules
Run module spider fastgear to find out what environment modules are available for this application.
System Variables
- HPC_FASTGEAR_DIR - installation directory
- HPC_FASTGEAR_BIN - executable directory
Additional Information
Run fastGear in your job script as
fastGear <INPUT_FILE> <OUTPUT_FILE> <INPUT_SPECS_FILE>
Note: <OUTPUT_FILE> must have a '.mat' extension as required in the manual.
Citation
If you publish research that uses fastgear you have to cite it as follows: