inst/helpfiles/tabPanel_drift_missingValue_FALSE.md
In tnaake/MatrixQCvis: Shiny-based interactive data-quality exploration for omics data
Trend line for aggregated values to indicate drifts/trends in data acquisition
This panel shows the sum- or median-aggregated values (specified in
Select aggregation). The plot allows to display trends in data
acquisition that originate e.g. from differences in instrument
sensitivity. The panel allows to display aggregated values for
raw (raw), normalized
(normalized), normalized+transformed (transformed), and
normalized+transformed+batch corrected (batch corrected)
assay values.
The different methods for normalization, transformation, and batch correction
are specified in the side panel.
The smoothing is calculated from a
selection of samples that are specified by the drop-down menus
Select variable and Select level to highlight.
The menu Select variable corresponds to the colnames in
colData(se). Here, we can select for the higher-order variable, e.g.
the sample type (containing for example Type_1, Type_2, ..., QC).
The drop-down menu Select level to highlight will specify the actual
selection from which
the trend line will be calculated (e.g. Type_1, Type_2, ..., QC). Also,
the menu will always include the level all, which will use all points to
calculate the trend line. As an example, if we want to calculate the trend line of
aggregated values of all samples belonging to the type QC, we select
QC in the drop-down menu.
The panel allows for further customization after expanding the collapsed box.
The data input is selected in the drop-down menu under Select data input.
The smoothing method (either LOESS or linear model) is selected in the drop-down
menu under Select smoothing method. The aggregation method is selected
in the drop-down menu Select smoothing method.
With the drop-down menu Select categorical variable to order samples,
the samples (x-axis) will be ordered alphanumerically according to the
selected level (and the sample name).
tnaake/MatrixQCvis documentation built on Nov. 4, 2024, 7:42 a.m.
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.
Trend line for aggregated values to indicate drifts/trends in data acquisition
This panel shows the sum- or median-aggregated values (specified in Select aggregation). The plot allows to display trends in data acquisition that originate e.g. from differences in instrument sensitivity. The panel allows to display aggregated values for raw (raw), normalized (normalized), normalized+transformed (transformed), and normalized+transformed+batch corrected (batch corrected) assay values. The different methods for normalization, transformation, and batch correction are specified in the side panel.
The smoothing is calculated from a
selection of samples that are specified by the drop-down menus
Select variable and Select level to highlight.
The menu Select variable corresponds to the colnames in
colData(se). Here, we can select for the higher-order variable, e.g.
the sample type (containing for example Type_1, Type_2, ..., QC).
The drop-down menu Select level to highlight will specify the actual
selection from which
the trend line will be calculated (e.g. Type_1, Type_2, ..., QC). Also,
the menu will always include the level all, which will use all points to
calculate the trend line. As an example, if we want to calculate the trend line of
aggregated values of all samples belonging to the type QC, we select
QC in the drop-down menu.
The panel allows for further customization after expanding the collapsed box. The data input is selected in the drop-down menu under Select data input. The smoothing method (either LOESS or linear model) is selected in the drop-down menu under Select smoothing method. The aggregation method is selected in the drop-down menu Select smoothing method.
With the drop-down menu Select categorical variable to order samples, the samples (x-axis) will be ordered alphanumerically according to the selected level (and the sample name).
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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