strg2vcf

Creates a string with the information for a single SNP. The information is
coded as R,A:DP. R is the number of reads of the reference allele, A is the
number of reads of the alternative allele and DP is the total depth of
coverage.

internal

Simulates pooled sequencing data under a variety of conditions.
Also allows for the evaluation of the average absolute difference between allele frequencies
computed from genotypes and those computed from pooled data.
Carvalho et al., (2022) <doi:10.1101/2023.01.20.524733>.

João Carvalho

poolHelper

Simulates Pooled Sequencing Genetic Data

Vítor Sousa

strg2vcf function

<dl><dt>reference</dt>
<dd>an integer representing the number of reads with the
reference allele</dd>
<dt>alternative</dt>
<dd>an integer representing the number of reads with the
alternative allele</dd>
<dt>total</dt>
<dd>an integer representing the total number of reads observed at
this SNP.</dd></dl>

Arguments

Create vcf string for a single SNP — strg2vcf

<dl>

<dt>reference</dt>
<dd>an integer representing the number of reads with the
reference allele</dd>


<dt>alternative</dt>
<dd>an integer representing the number of reads with the
alternative allele</dd>


<dt>total</dt>
<dd>an integer representing the total number of reads observed at
this SNP.</dd>

</dl>

strg2vcf: Create vcf string for a single SNP

Description

Usage

Value

Arguments