Description Usage Arguments Details Value Author(s) References Examples
This function preprocesses your aCGH data so it can be processed by other functions without errors.
1 | preprocess(input, maxmiss = 30, nchrom = 23, ...)
|
input |
Object of class |
maxmiss |
Maximum percentage of missing values per row. |
nchrom |
Number of chromosomes. |
... |
Arguments for |
This function performs the following actions on arrayCGH data:
Filter out data with missing position information.
Remove data on chromosomes larger than nchrom.
Remove rows with more than maxmiss percentage missing values.
Imputes missing values using the impute.knn
function from the impute package.
This function returns a dataframe in the same format as the input with missing values imputed.
Sjoerd Vosse & Mark van de Wiel
Olga Troyanskaya, Michael Cantor, Gavin Sherlock, Pat Brown, Trevor Hastie, Robert Tibshirani, David Botstein, and Russ B. Altman (2001). Missing value estimation methods for DNA microarrays. Bioinformatics, 17, 520-525.
1 2 | data(WiltingRaw)
preprocessed <- preprocess(WiltingRaw, nchrom = 22)
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