removedSnpMissPostImp: Remove SNPs after post imputation
In Junfang/Gimpute: Gimpute: An efficient genetic data processing and imputation pipeline
Description
Usage
Arguments
Value
Author(s)
Description
Remove SNPs which have a non missing value for less than a predefined number of instances.
Usage
1
2
removedSnpMissPostImp(plink, inputPrefix, missCutoff, snpWithManyMissSNPfile,
outputPrefix)
Arguments
plink
an executable PLINK program in either the current working directory or somewhere in the command path.
inputPrefix
the prefix of the input PLINK format files.
missCutoff
the cutoff of the least number of instances for a SNP that is not missing.
snpWithManyMissSNPfile
the output file of SNPs with pre-defined missing values.
outputPrefix
the prefix of the PLINK format files.
Value
The PLINK format files after post imputation quality control and a pure text file contains SNPs with pre-defined missing values.
Author(s)
Junfang Chen <junfang.chen3@gmail.com>
Junfang/Gimpute documentation built on May 17, 2019, 10:11 p.m.
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Description Usage Arguments Value Author(s)
Description
Remove SNPs which have a non missing value for less than a predefined number of instances.
Usage
1 2 | removedSnpMissPostImp(plink, inputPrefix, missCutoff, snpWithManyMissSNPfile,
outputPrefix)
|
Arguments
plink |
an executable PLINK program in either the current working directory or somewhere in the command path. |
inputPrefix |
the prefix of the input PLINK format files. |
missCutoff |
the cutoff of the least number of instances for a SNP that is not missing. |
snpWithManyMissSNPfile |
the output file of SNPs with pre-defined missing values. |
outputPrefix |
the prefix of the PLINK format files. |
Value
The PLINK format files after post imputation quality control and a pure text file contains SNPs with pre-defined missing values.
Author(s)
Junfang Chen <junfang.chen3@gmail.com>
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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