pyDESeq2 multi-contrast
DESeq2 contrasts + interactive PCA / volcano / heat-maps
Output
Configuration
samples_colname
Name of the **metadata** column holding sample IDs (must match count-table headers).
stringgenes_colname
Name of the **count-table** column containing gene identifiers.
stringcondition_column
Metadata column that defines treatments / experimental conditions.
stringConditioncontrol_condition
Reference (control) level inside *condition_column*.
stringtimepoint_column
Optional time-point column (per-time-point contrasts if provided).
stringgroup_column
Optional second grouping column (e.g. sex, strain).
stringextra_covariates
Comma-separated list of additional covariate columns (added as main effects).
stringpvalue_value
P-value/FDR threshold for filtered outputs.
float0.05log2FoldChange_value
Absolute |log₂FC| cutoff for filtered outputs.
float0.5