plink1.9的GWAS数据处理流程.docxVIP

Data management Generate binary fileset --make-bed --make-bed?creates a new? PLINK 1 binary fileset,?after?applying sample/variant filters and other operations below. For example, plink --file?text_fileset?--maf?0.05?--make-bed --out?binary_fileset does the following: Autogenerate?binary_fileset-temporary.bed?+?.bim?+?.fam. (The MAF filter has not yet been applied at this stage. See the? Order of operations?page for more details.) Read?binary_fileset-temporary.bed?+?.bim?+?.fam. Calculate MAFs. Remove all variants with MAF ?0.05?from the current analysis. Generate?binary_fileset.bed?+?.bi