pairs.collect.junctions: collect junctions from pairs as breakpoints
In kevinmhadi/khtools: Making Mskilab Life Easier

pairs.collect.junctions

R Documentation

collect junctions from pairs as breakpoints

Description

get junctions from gGraph object column in pairs table

Usage

## S3 method for class 'collect.junctions'
pairs(
  pairs,
  jn.field = "complex",
  id.field = "pair",
  mc.cores = 1,
  mask = "/gpfs/commons/groups/imielinski_lab/DB/Broad/um75-hs37d5.bed.gz",
  ev.types = c("bfb", "chromoplexy", "chromothripsis", "del", "dm", "dup", "fbi",
    "pyrgo", "qrdup", "qrdel", "qrp", "rigma", "simple_inv", "simple_invdup",
    "simple_tra", "tic", "tyfonas", "cpxdm", "tib", "qrppos", "qrpmix", "qrpmin")
)

kevinmhadi/khtools documentation built on Jan. 16, 2025, 4:18 p.m.