fusion.table: fusion.table

fusion.tableR Documentation

fusion.table

Description

Prepare table of fusion events for displaying

Usage

fusion.table(
  fusions.fname = NULL,
  complex.fname = NULL,
  cgc.fname = "/data/cgc.tsv",
  ev.types = c("qrp", "qpdup", "qrdel", "tic", "bfb", "dm", "chromoplexy",
    "chromothripsis", "tyfonas", "rigma", "pyrgo", "cpxdm")
)

Arguments

fusions.fname

(character) file name containing fusion gWalks

complex.fname

(character) file name to events

cgc.fname

(character) cancer gene census file name

ev.types

(character) event types

Value

gWalk (filtered) with metadata columns: - walk.id - name (e.g. involved genes) - num.aa (total number of aminos) - gene.pc (protein coordinates) - driver (logical, is a gene a driver) - ev.id (complex event IDs overlapping with walk) - ev.type (complex event type overlapping with walk)


mskilab/casereport documentation built on Oct. 19, 2022, 3 a.m.