constructFeatureTable: constructFeatureTable
In mjhelf/Mosaic: Metaboseek platform

View source: R/Functions_class_featureTable.R

constructFeatureTable

R Documentation

constructFeatureTable

Description

Constructor function for "MseekFT" object from a feature table data.frame. uses and retains the original data frame plus names of columns containing relevant data.

Usage

constructFeatureTable(
  df = data.frame(mz = numeric(3), rt = numeric(3)),
  mzcol = "mz",
  rtcol = "rt",
  commentcol = "comments",
  fragmentcol = "fragments",
  rtFormat = "sec",
  anagrouptable = NULL,
  tablename = "Custom Table",
  editable = T,
  processHistory = list()
)

Arguments

`df`	feature table as data.frame, with retention time (rt), mz and (optionally) intensity values.
`mzcol`	column in df with mz values (columnname), defaults to "mz"
`rtcol`	column in df with rt values (columnname), defaults to "rt"
`commentcol`	column in df with comments (columnname), defaults to "comments"
`fragmentcol`	column in df with fragmentation information (columnname), defaults to "fragments"
`rtFormat`	Are retention times given in seconds ("sec") or minutes ("min")
`anagrouptable`	Analysis grouping table: a data.frame with columns "Column" (containing column names from df with intensity values) and "Group" (defining a group for each entry in "Column")
`tablename`	Name of the table as displayed by Mseek
`editable`	allow editing of this table in the Mseek app? if FALSE, only comments column can be edited. editable tables are also not paginated.
`processHistory`	a list of `processHistory` objects