BEVITAL AS | Lab Data Report | Part 3
Project: PROJECT | Report date: 2023-11-07 | Lab data analyst(s): OAA/LN/RMH/MK | Report author(s): JLB
1 Missing data points
1.1 Tabular summaries
1.1.1 Missing values for metabolites
Metabolites with >60% missing values are not included in the data sets or plots with imputed values.
Abbreviations:
- nMISS: number of missing values for each variable
- pctMISS: proportion (%) of missing values for each variable
1.1.2 Missing values for cases
If empty table, then no missing values were found in the data set.
Abbreviations:
- nMISS: number of missing values for each case
- pctMISS: proportion (%) of missing values for each case
1.1.3 Number of missing values for metabolites
This table shows the number of times that there are a certain
number of missing values in a variable.
If empty table, then no missing values were found in the data
set.
Abbreviations:
- nMISSinVAR: number of missing values for each
variable
- nVARS: number of metabolites with the number of missing
values
- pctVARS: proportion (%) of metabolites with the number of missing values
1.1.4 Number of missing values for cases
This table shows the number of times that there are a certain
number of missing values in a case/observation.
If empty table, then no missing values were found in the data
set.
Abbreviations:
- nMISSinOBS: number of missing values for a
case/observation
- nOBS: number of cases/observations with the number of missing
values
- pctOBS: proportion (%) of cases/observations with the number of missing values
1.1.5 Variable summary
This table shows the numbers of missing data points per variable
and reason for missingness
If empty table, then no missing values were found in the data
set.
Abbreviations:
- n: number of missing data points
1.1.6 Overall summary
This table shows the total numbers of samples and metabolites measured in this project, as well as the proportion of missing data points and their reason(s).
Abbreviations:
- mdp: missing data points
- LOD: limit of detection
- M(C)AR: missing (completely) at random
- MNAR: missing not at random
- nVARS: number of metabolites
- pctVARS: proportion (%) of metabolites
1.2 Graphical presentations
1.2.1 Missing values for metabolites
1.2.1.1 All measured platforms
If empty plot, then no missing values were found in the data
set.
This plot may also be omitted if not all metabolites have been
measured for all groups/samples in the data set or because of other
issues in the data.
1.2.1.2 Separate platforms
If empty plot(s), then no missing values were found in the data
set.
This plot may also be omitted if not all metabolites have been
measured for all groups/samples in the data set or because of other
issues in the data.
1.2.2 Upset plot
This plot shows intersections between metabolites with the
highest proportions of missing values, if any.
The upset plot is created only if the data set contains more than
one variable with missing data points.
This plot may be omitted if not all metabolites have been measured
for all groups/samples in the data set or because of other issues in the
data.
1.2.3 Missing data mechanisms
This plot shows the proportions of missing data points (if any)
explained by different mechanisms.
If empty table, then no missing values were found in the data
set.
Abbreviations:
- M(C)AR: missing (completely) at random
- MNAR: missing not at random
1.3 Reasons for missingness
These tables specify reasons for missing values, if any.
1.3.1 All
All missing data points with coded inputs and explanation
1.3.2 Sample missing
Missing data points because of sample missing
1.3.3 Sample empty | Limited volume
Missing data points because of empty sample / limited volume
1.3.4 Below LOD
Missing data points because of values below LOD
See LOD values (if defined) in part 1.
1.3.5 Severe hemolysis
Missing data points because of severe hemolysis
1.3.6 Clot | Protein precipitation
Missing data points because of clot / protein precipitation
1.3.7 Exceeded linear range | Out of range
Missing data points because values exceeded linear range / was out of range
1.3.8 Antibiotic growth issues
Missing data points because of antibiotic growth issues (platform F)
1.3.9 Analysis failed
Missing data points because analyses failed
See comments in section 1.4.
1.3.10 Other reasons
Missing data points because of other reasons
See comments in section 1.4.
1.4 Further comments
Here, some of the reasons behind missing values are specified with further comments, if necessary.
1.4.1 All
All missing data points with comments
This table lists reasons for missing data points when the analyses failed or for other reasons not explained in the tables in section 1.3.