discoCheckInput: Import Data for DiscoRhythm Analysis
In matthewcarlucci/DiscoRhythm: Interactive Workflow for Discovering Rhythmicity in Biological Data
discoCheckInput R Documentation
Import Data for DiscoRhythm Analysis
Description
Performs various checks and cleaning operations on the input data.
Usage
discoCheckInput(se, n_min_sample = 3)
Arguments
se
SummarizedExperiment, the main data object used by DiscoRhythm
expected to contain se$ID, se$ReplicateID, se$Time sample metadata and
non-null rownames. See the vignette for more details.
n_min_sample
numeric value specifying minimal number of samples
needed to perform analysis.
Details
Rows containing NA's or all constant values are removed.
If matrix values are character it will be attempted to convert them
to numeric.
If input is not a matrix it will be converted using
as.matrix().
User will be warned if row IDs contain duplicate entries.
Value
SummarizedExperiment checked for errors and
modified as needed
Examples
se <- discoGetSimu(TRUE)
se_clean <- discoCheckInput(se)
matthewcarlucci/DiscoRhythm documentation built on March 24, 2022, 10:22 a.m.
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| discoCheckInput | R Documentation |
Import Data for DiscoRhythm Analysis
Description
Performs various checks and cleaning operations on the input data.
Usage
discoCheckInput(se, n_min_sample = 3)
Arguments
se |
SummarizedExperiment, the main data object used by DiscoRhythm expected to contain se$ID, se$ReplicateID, se$Time sample metadata and non-null rownames. See the vignette for more details. |
n_min_sample |
numeric value specifying minimal number of samples needed to perform analysis. |
Details
Rows containing NA's or all constant values are removed.
If matrix values are character it will be attempted to convert them
to numeric.
If input is not a matrix it will be converted using
as.matrix().
User will be warned if row IDs contain duplicate entries.
Value
SummarizedExperiment checked for errors and modified as needed
Examples
se <- discoGetSimu(TRUE) se_clean <- discoCheckInput(se)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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