Man pages for vcfR
Manipulate and Visualize VCF Data

addID	Populate the ID column of VCF data
AD_frequency	AD_frequency
check_keys	Check that INFO and FORMAT keys are unique
chromo_plot	Plot chromR object
chromR-class	chromR class
chromR_example	Example chromR object.
chromR_functions	chromR_functions
chromR-method	chromR-method
chrom_to_vcfR	Convert chrom objects to vcfR objects
create_chromR	Create chromR object
drplot	dr.plot elements
extract_gt	Extract elements from vcfR objects
fasta_output	Create fasta format output
freq_peak	freq_peak
freq_peak_plot	Plot freq_peak object
genetic_diff	Genetic differentiation
genotype_matrix	Genotype matrix functions
getFIX	Get elements from the fixed region of a VCF file
heatmap_bp	Heatmap with barplots
INFO2df	Reformat INFO data as a data.frame
io_vcfR	Read and write vcf format files
is_het	Query genotypes for heterozygotes
maf	Minor allele frequency
masplit	masplit
ordisample	Ordinate a sample's data
pairwise_genetic_diff	Pairwise genetic differentiation across populations
peak_to_ploid	Convert allele balance peaks to ploidy
pipe	Pipe operator
pop_gen_sum	Population genetics summaries
proc_chromR	Process chromR object
query_gt	Query the gt slot
queryMETA	Query the META section of VCF data
ranking	Ranking variants within windows
rePOS	Create non-overlapping positions (POS) for VCF data
summary_tables	Write summary tables from chromR objects
vcfR	Variant call format files processed with vcfR.
vcfR2DNAbin	Convert vcfR to DNAbin
vcfR2hapmap	Convert a vcfR object to hapmap
vcfR2migrate	Convert a vcfR object to MigrateN input file
vcfR-class	vcfR class
vcfR_conversion	Convert vcfR objects to other formats
vcfR_example	Example data for vcfR.
vcfR-method	show
vcfR_test	Test data for vcfR.
vcfR_to_tidy_conversion	Convert vcfR objects to tidy data frames
vep	Example data from the Variant Effect Predictor (VEP).
windowing	Create window summaries of data