prune.plink: Prune markers by pairwise LD with PLINK
In andrewparkermorgan/argyle: Basic interface and QC for genotypes from Illumina Infinium arrays
Description
Usage
Arguments
Details
Value
References
Description
Prune markers by pairwise LD with PLINK
Usage
1
prune.plink(prefix, prune.by = "--make-founders --indep 50 5 2", ...)
Arguments
prefix
a pointer to a PLINK fileset (of class plink)
prune.by
command-line flags to control LD-pruning
...
ignored
Details
See the relevant PLINK documentation for details of the underlying calculations.
Value
a pointer to a new, pruned PLINK fileset
References
PLINK v1.9: https://www.cog-genomics.org/plink2
Purcell S et al. (2007) PLINK: a toolset for whole-genome association and population-based
linkage analysis. Am J Hum Genet 81(3): 559-575. doi:10.1086/519795.
andrewparkermorgan/argyle documentation built on May 10, 2019, 11:08 a.m.
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Description Usage Arguments Details Value References
Description
Prune markers by pairwise LD with PLINK
Usage
1 | prune.plink(prefix, prune.by = "--make-founders --indep 50 5 2", ...)
|
Arguments
prefix |
a pointer to a PLINK fileset (of class |
prune.by |
command-line flags to control LD-pruning |
... |
ignored |
Details
See the relevant PLINK documentation for details of the underlying calculations.
Value
a pointer to a new, pruned PLINK fileset
References
PLINK v1.9: https://www.cog-genomics.org/plink2
Purcell S et al. (2007) PLINK: a toolset for whole-genome association and population-based linkage analysis. Am J Hum Genet 81(3): 559-575. doi:10.1086/519795.
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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