| Component |
Version |
Inputs |
Outputs |
Description |
| CreateSQLiteIDs |
0.1 |
geneList |
wIDs |
For a subset of genes, create a file with additional reference IDs. |
| DEan |
0.4 |
expr, treatment |
array, diffExpr |
Performs differential expression analyses in R between pairs of sample groups using up to 4 methods: DESeq, DESeq2, EdgeR, and upper-quartile normalization with t-test. |
| DEGReport |
1.1.1 |
deg, geneAnnotation, expr |
summary, genelist |
Creates a LaTeX report on differentially expressed genes (DEGs). |
| ExpressionExtremes |
1.3 |
in |
out |
Selects differentially expressed genes using expression values as criterion. |
| ExprMixtureModel |
1.4 |
expr, annot, groups |
stats, report, samplesets |
Provides a mixture model fit of two normal distributions for the
given genes. |
| FoldChange |
1.1 |
in |
out |
Selects differentially expressed genes using fold change as criterion. |
| SampleExpression |
1.1 |
expr, groups |
indicator, logratio, deviation |
Creates a -1/0/1 matrix that indicates whether a given gene/probe is
differentially expressed in individual samples. |
Up: Category summary
DEG