AppendDosages

Dosages are stored with 1/16384 precision. Hardcalls are saved as well:
each is the nearest integer when the dosage is within 0.1 of it, and
missing otherwise.

A thin wrapper over 'PLINK' 2's core libraries which provides an R
interface for reading .pgen files. A minimal .pvar loader and a basic
.pgen writer are also included. Chang et al. (2015) <doi:10.1186/s13742-015-0047-8>.

Christopher Chang

pgenlibr

'PLINK' 2 Binary (.pgen) Reader

Eric Biggers

Yann Collet

Meta Platforms, Inc. 

Evan Nemerson

Przemyslaw Skibinski

Nick Terrell

AppendDosages function

<dl><dt>pgen_writer</dt>
<dd>Object returned by NewPgenWriter(), with
dosage_present = TRUE.</dd>
<dt>dosages</dt>
<dd>Numeric vector of length sample_ct, with ALT allele dosages
in [0, 2], or NA for missing. (A buffer filled by Read() is in this
format.)</dd></dl>

Arguments

Appends a biallelic dosage variant to a .pgen being written. — AppendDosages

<dl>

<dt>pgen_writer</dt>
<dd>Object returned by NewPgenWriter(), with
dosage_present = TRUE.</dd>


<dt>dosages</dt>
<dd>Numeric vector of length sample_ct, with ALT allele dosages
in [0, 2], or NA for missing. (A buffer filled by Read() is in this
format.)</dd>

</dl>

AppendDosages: Appends a biallelic dosage variant to a .pgen being written.

Description

Usage

Value

Arguments