Description Usage Arguments Value Author(s)
retrieve the comparison information for an DsAcc object. Analogous to RnBeads::get.comparison.info
1 2 3 4 5 6 7 8 9 | getComparisonInfo(
dsa,
cmpNames = NULL,
regionTypes = getRegionTypes(dsa),
allPairs = TRUE,
adjPairCols = NULL,
minGrpSize = 1L,
maxGrpCount = NULL
)
|
dsa |
|
cmpNames |
column names of the sample annotation of the dataset that will be used for comparison |
regionTypes |
which region types should be processed for differential analysis. |
allPairs |
Logical indicating whether all pairwise comparisons should be conducted, when more than 2 groups are present |
adjPairCols |
argument passed on to |
minGrpSize |
Minimum number of samples required to form a group in comparison |
maxGrpCount |
maximum number of groups to consider for comparisons |
a list containing one element for each comparison to be conducted. Each element is again a list containing:
comparison
the name of the comparison
pheno.colname
the column name of the sample annotation table the comparison is derived from
group.names
the names of the two groups being compared
group.inds
the sample indices of the samples belonging to the two groups
paired
flag indicating whether paired analysis is conducted
adj.sva
flag indicating whether adjustment for SVA is conducted
adj.celltype
flag indicating whether adjustment for cell type is conducted
adjustment.table
the covariate adjustment table. NULL
if the comparison is not adjusted
region.types
the region types applicable to the analysis
Fabian Mueller
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