get_flt3itd: Getting FLT3 internal tandem duplication (ITD) variants

In northNomad/tapestri.tools: A toolbox for the analysis of tapestri single cell multi-omics data

Getting FLT3 internal tandem duplication (ITD) variants

Description

get_flt3itd retrieves FLT3 ITD variants in an .h5 file

Usage

get_flt3itd(
  h5f,
  format = c("data.table", "GRanges"),
  gr_coordinate_within = GRanges(seqnames = "chr13", ranges = IRanges(start = 28607990,
    end = 28608531)),
  insertion_size = c(6, 180)
)

Arguments

h5f	h5f
format	data.table by default.
gr_coordinate_within	A GRanges object. Specifies the genomic coordinates to search for ITD mutations in the FLT3 gene. Currently uses hg19 coordinates as reference.
insertion_size	A numeric vector with exactly two values. Specifies the minimum and maximum insertion size (in basepairs) introduced by an ITD mutation.

Value

A data.table or a GRanges object with FLT3-ITD variants.

northNomad/tapestri.tools documentation built on May 31, 2024, 4:44 p.m.