select.samples.Rd
This function select samples based on information given in the metadata
select.samples(siamcat, filter, allowed.set = NULL, allowed.range = NULL, verbose = 1)
siamcat | an object of class siamcat-class |
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filter | string, name of the meta variable on which the selection should be done |
allowed.set | a vector of allowed values |
allowed.range | a range of allowed values |
verbose | integer, control output: |
an object of class siamcat-class with labels and metadata filtered in order to contain only allowed values
This functions selects labels and metadata based on a specific column in the metadata. Provided with a column-name in the metadata and a range or a set of allowed values, the function will filter the siamcat-class object accordingly.
data(siamcat_example) # Select all samples that fall into an Age-range between 25 and 80 years siamcat_selected <- select.samples(siamcat_example, filter='Age', allowed.range=c(25, 80))#> Warning: The machine learning pipeline has to be run again after filtering the samples#> Warning: Selcting samples may affect the results of feature filtering and normalization #> For sanity, results fromprevious analyses (e.g. filtered features) will be removed!#># Select only female samples siamcat_female <- select.samples(siamcat_example, filter='Gender', allowed.set=c('F'))#> Warning: The machine learning pipeline has to be run again after filtering the samples#> Warning: Selcting samples may affect the results of feature filtering and normalization #> For sanity, results fromprevious analyses (e.g. filtered features) will be removed!#>