Clonality Estimates in Tumor


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Documentation for package ‘CLONETv2’ version 2.1.0

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CLONETv2-package CLONETv2
adm_table_toy Toy example of admixture table.
allele_specific_cna_table_toy Toy example of allele specific table of somatic copy number.
bt_toy Toy example of beta table.
check_ploidy_and_admixture Function to compute ploidy from a beta table.
compute_allele_specific_scna_table Function to compute allele specific somatic copy number
compute_beta_table Function to compute beta table
compute_dna_admixture Function to compute DNA admixture of a tumor sample from the associatd beta table and ploidy table
compute_ploidy Function to compute ploidy from a beta table.
compute_scna_clonality_table Function to compute clonality of somatic copy number data
compute_snv_clonality Function to compute clonality of SNVs
error_table Beta estimation error.
pileup_normal_toy Toy example of normal pileup data.
pileup_tumor_toy Toy example of tumor pileup data.
pl_table_toy Toy example of ploidy table.
scna_clonality_table_toy Toy example of clonality table of somatic copy number.
seg_tb_toy Toy example of segmetd data.
snv_clonality_table_toy Toy example of snv clonality table.
snv_reads_toy Toy example of snv data.