easySFS_fsc2: Run easySFS even easier to generate input MSFS and population...
In JeffWeinell/misc.wrappers: Miscellaneous Wrapper Functions for Spatial Population Genomics
easySFS_fsc2 R Documentation
Run easySFS even easier to generate input MSFS and population files for fastsimcoal2
Description
Given VCF and traits files usually needed by easySFS, generate the fsc2 MSFS and the pops file needed for fastsimcoal2
Chooses the projection that yields the greatest number of segregating sites, without trying to balance for the number of individuals.
Usage
easySFS_fsc2(easySFS.path, vcf, traits, output.dir)
Arguments
easySFS.path
Character string with path to the easySFS executable
vcf
Character string with path to the VCF file
traits
Character string with path to the traits file
output.dir
Character string with path to directory where the two output files should be saved.
Details
IMPORTANT: You must include the next two lines in the sh file for any job that uses this function. For now this function will only work for me.
module load anaconda/4.7
conda activate easySFS
requires gtools package
JeffWeinell/misc.wrappers documentation built on Sept. 20, 2023, 12:42 p.m.
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| easySFS_fsc2 | R Documentation |
Run easySFS even easier to generate input MSFS and population files for fastsimcoal2
Description
Given VCF and traits files usually needed by easySFS, generate the fsc2 MSFS and the pops file needed for fastsimcoal2 Chooses the projection that yields the greatest number of segregating sites, without trying to balance for the number of individuals.
Usage
easySFS_fsc2(easySFS.path, vcf, traits, output.dir)
Arguments
easySFS.path |
Character string with path to the easySFS executable |
vcf |
Character string with path to the VCF file |
traits |
Character string with path to the traits file |
output.dir |
Character string with path to directory where the two output files should be saved. |
Details
IMPORTANT: You must include the next two lines in the sh file for any job that uses this function. For now this function will only work for me. module load anaconda/4.7 conda activate easySFS
requires gtools package
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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