Analysis and Exploration of Mixed Microbial Genomic Samples

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Documentation for package ‘MixviR’ version 3.5.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

add_depths_to_ref	Add Read Depths To Ref
call_mutations	Identify Variants From A Potentially Mixed Sample
create_ref	Create MixVir-formatted reference genome object
estimate_lineages	Estimate Lineage Proportions In Samples
explore_mutations	MixviR Shiny Dashboard
get_codons	Get Codons From Gene Sequence
id_indels	ID Indel-based Amino Acid Changes
id_snps	ID SNV-based Amino Acid Changes
vcf_to_mixvir	Convert Sample VCF to MixviR Input Format