Plink fam file. It uses readr::read_table() to do it efficiently.

Plink fam file. All commands involve typing plink at the command prompt (e. Your goal will be to transform the binary file format saved as bim, bed, and fam files to a text-based genotype format saved as ped and map files. readthedocs. Note that for SNPs with About PLINK file format [From a slack discussion initialized by a student in the lab] PLINK format, in particular the bed/fam/bim bundle for genotype data, is one of the most popular format to store genotype information, amount a couple of others such as VCF (and derivatives from it) and bgen. ext will Jun 14, 2018 · The PLINK bed, bim, and fam files are the three mandatory files to run FamPipe. The format of the files can be found in the "PLINK user manual". g. io Basic usage / data formats PLINK is a command line program written in C/C++. ) See full list on plink. It uses readr::read_table() to do it efficiently. This exercise will also give you a detailed description of the use of PLINK. The bim file contains the SNP names and map positions. Usage read_fam(file, verbose = TRUE) Arguments. Read Plink *. DOS window or Unix terminal) followed by a number of options (all starting with --option) to specify the data files / methods to be used. Aug 19, 2025 · File format reference This page describes specialized PLINK input and output file formats which are identifiable by file extension. The bed file is a binary file containing the genotype information. , rs ID), and physical positions based on hg19 should be specified. ext where . fam files Description This function reads a standard Plink *. Chromosome number, SNP names (i. All results are written to files with various extensions. e. The name of the file is by default plink. (Most extensions not listed here have very simple one-entry-per-line text formats. fam file into a tibble with named columns. ydwn fmlz gvbgm zkinq qego cmkz hnvasx fty zzt wnzgycl