simulatePopulation: Simulate a population given ranges of chromosome sequence to...

In kmeRtone: Multi-Purpose and Flexible k-Meric Enrichment Analysis Software

Simulate a population given ranges of chromosome sequence to mutate.

Description

Simulate a population given ranges of chromosome sequence to mutate.

Usage

simulatePopulation(
  chrom_seq,
  starts,
  ends,
  strand,
  snv_df,
  pop_size,
  top_kmers,
  central_pattern,
  k
)

Arguments

chrom_seq	A chromosome sequence.
starts	Start positions.
ends	End positions.
strand	Strand type: "+" or "-".
snv_df	A table of SNV frequency. Columns: position, base, count.
pop_size	Size of population.
top_kmers	Extreme k-mers i.e. highly susceptible k-mers.
central_pattern	K-mer central pattern.
k	K-mer size.

Value

A count matrix with 4 rows for total top k-mers and susceptible k-mers in sense and antisense. Columns correspond to population individuals.

kmeRtone documentation built on Sept. 11, 2024, 9:12 p.m.