editBaseline - Edit the Baseline object
Description¶
editBaseline
edits a field in a Baseline
object.
Usage¶
editBaseline(baseline, field, value)
Arguments¶
- baseline
Baseline
object to be edited.- field
- name of the field in the
Baseline
object to be edited. - value
- value to set the
field
.
Value¶
A Baseline
object with the field of choice updated.
Examples¶
# Subset example data as a demo
data(ExampleDb, package="alakazam")
db <- subset(ExampleDb, c_call == "IGHG" & sample_id == "+7d")
set.seed(112)
db <- dplyr::slice_sample(db, n=100)
# Make Baseline object
baseline <- calcBaseline(db,
sequenceColumn="sequence_alignment",
germlineColumn="germline_alignment_d_mask",
testStatistic="focused",
regionDefinition=IMGT_V,
targetingModel=HH_S5F,
nproc=1)
calcBaseline will calculate observed and expected mutations for sequence_alignment using germline_alignment_d_mask as a reference.
Calculating BASELINe probability density functions...
# Edit the field "description"
baseline <- editBaseline(baseline, field="description",
value="+7d IGHG")
See also¶
See Baseline for the input and return object.