filter_TMT_PSMs.Rd
Filter PSMs from TMT quantification to remove the following:
Missing values (NA
) for all tags
Interference/co-isolation above a set value (default=100, e.g no filtering)
Signal:noise ratio below a set value (default=0, e.g no filtering)
Filter PSMs from TMT quantification to remove the following
Missing values (NA) for all tags
Interference/co-isolation above a set value (default=100, e.g no filtering)
Signal:noise ratio below a set value (default=0, e.g no filtering)
filter_TMT_PSMs(
obj,
inter_thresh = 100,
sn_thresh = 0,
master_protein_col = "Master.Protein.Accessions",
inter_col = "Isolation.Interference.in.Percent",
sn_col = "Average.Reporter.SN",
verbose = TRUE
)
filter_TMT_PSMs(
obj,
inter_thresh = 100,
sn_thresh = 0,
master_protein_col = "Master.Protein.Accessions",
inter_col = "Isolation.Interference.in.Percent",
sn_col = "Average.Reporter.SN",
verbose = TRUE
)
MSnSet
PSMs
numeric
Maximum allowed interference/co-isolation
numeric
Minimum allowed signal:noise threshold
string
. Name of column containing master
proteins.
string
Name of column containing the interference value
string
Name of column containing the signal:noise value
boolean
. Default is TRUE, use verbose output messages.
Returns an MSnSet
with the filtered PSMs.
MSnSet
with the filtered PSMs.