add_depths_to_ref: Add Read Depths To Ref
In MixviR: Analysis and Exploration of Mixed Microbial Genomic Samples
add_depths_to_ref R Documentation
Add Read Depths To Ref
Description
Add column of total read depths for a given sample to reference df. Run as part of id_mutations().
Usage
add_depths_to_ref(ref, samp.variants)
Arguments
ref
reference genome in "MixVir" format (from create_ref() function)
samp.variants
Data frame produced by function vcf_to_mixvir(). Contains columns "CHR", "POS", "REF", "ALT", "DP", "ALT_COUNT".
Value
Original 'ref' data frame with depth (DP) column added: cols "genomic_pos" "ref_base" "gene" "ref_codon" "ref_AA" "GENE_AA_POS" "ref_identity" "DP"
MixviR documentation built on Oct. 23, 2022, 1:09 a.m.
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| add_depths_to_ref | R Documentation |
Add Read Depths To Ref
Description
Add column of total read depths for a given sample to reference df. Run as part of id_mutations().
Usage
add_depths_to_ref(ref, samp.variants)
Arguments
ref |
reference genome in "MixVir" format (from create_ref() function) |
samp.variants |
Data frame produced by function vcf_to_mixvir(). Contains columns "CHR", "POS", "REF", "ALT", "DP", "ALT_COUNT". |
Value
Original 'ref' data frame with depth (DP) column added: cols "genomic_pos" "ref_base" "gene" "ref_codon" "ref_AA" "GENE_AA_POS" "ref_identity" "DP"
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.
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