Compiled date: 2022-11-01
Last edited: 2022-08-02
License: GPL-3
Run the following code to install the Bioconductor version of package.
# install.packages("BiocManager")
BiocManager::install("POMA")
library(POMA)
The following function will return an Exploratory Data Analysis (EDA) HTML report. The input object must be a SummarizedExperiment object.
data("st000336")
PomaEDA(st000336)
Generated EDA HTML report starts here.
Your data have 57 samples, 31 features and 2 groups, that are “Controls”, “DMD”. Furthermore, 1 covariates have been found in your data. These covariates are “steroids”.
A 3.45% of values in your data are NAs (missing values). Variables that have NA values are “aspartic_acid (5)”, “citrulline (28)”, “glutamic_acid (15)”, “methionine (3)”, “x3_hba (1)”, “a_kg (1)”, “citrate (2)”, “fumarate (1)”, “lactate (2)”, “malate (1)”, “pyruvate (1)”, “succinate (1)”.
A 0% of values in your data are zeros.
Removed from the exploratory data analysis 0 features that only have zeros.
Removed from the exploratory data analysis 0 features that have zero variance.
Samples Features Covariates
1 57 31 1
Number_Zeros Percentage_Zeros
1 0 0 %
Number_Missings Percentage_Missings
1 61 3.45 %
7 possible outliers detected in your data. These outliers are “DMD119.2.U02”, “DMD084.11.U02”, “DMD087.12.U02”, “DMD023.10.U02”, “DMD046.11.U02”, “DMD133.9.U02”, “DMD135.10.U02”.
# A tibble: 7 × 4
sample group distance_to_centroid limit_distance
<chr> <fct> <dbl> <dbl>
1 DMD119.2.U02 Controls 2.74 2.29
2 DMD084.11.U02 DMD 4.52 4.04
3 DMD087.12.U02 DMD 4.25 4.04
4 DMD023.10.U02 DMD 5.65 4.04
5 DMD046.11.U02 DMD 5.58 4.04
6 DMD133.9.U02 DMD 5.35 4.04
7 DMD135.10.U02 DMD 4.06 4.04