prep_vcf_for_est_m_rd: convert a VCF into an 012,-1 matrix and read_depth bin matrix...
In whoa: Evaluation of Genotyping Error in Genotype-by-Sequencing Data
Description
Usage
Arguments
Value
Examples
View source: R/prep_vcf_for_est_m_rd.R
Description
convert a VCF into an 012,-1 matrix and read_depth bin matrix for estimation
Usage
1
prep_vcf_for_est_m_rd(v, DF = "DP", minBin)
Arguments
v
a vcfR object into which a VCF file has been read
DF
Field to use for obtaining total read depth. Currently
all that is available is DP.
minBin
minimum number of observations for each read depth bin
Value
This sends back a list with mat012: the 012,-1 matrix of genotypes, and
dp_bins_list: the list returned by bin_depths().
Examples
1
pv <- prep_vcf_for_est_m_rd(lobster_buz_2000, minBin = 1000)
whoa documentation built on Aug. 11, 2021, 9:06 a.m.
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.
Description Usage Arguments Value Examples
View source: R/prep_vcf_for_est_m_rd.R
Description
convert a VCF into an 012,-1 matrix and read_depth bin matrix for estimation
Usage
1 | prep_vcf_for_est_m_rd(v, DF = "DP", minBin)
|
Arguments
v |
a vcfR object into which a VCF file has been read |
DF |
Field to use for obtaining total read depth. Currently all that is available is DP. |
minBin |
minimum number of observations for each read depth bin |
Value
This sends back a list with mat012: the 012,-1 matrix of genotypes, and
dp_bins_list: the list returned by bin_depths().
Examples
1 | pv <- prep_vcf_for_est_m_rd(lobster_buz_2000, minBin = 1000)
|
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.