add limma to test_experimental

nf-core · Oct 29, 2024 · 4477e1c · 4477e1c
1 parent 1f4e926
commit 4477e1c
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/assets/tools_samplesheet.csv b/assets/tools_samplesheet.csv
@@ -6,7 +6,7 @@ propd_ora,propd,,,,gprofiler2,
 deseq2_gsea,deseq2,,,,gsea,
 deseq2_ora,deseq2,,,,gprofiler2,
 limma,limma,,,,,
-limma_gsea,limma,,,,gsea,
+limma_ora,limma,,,,gprofiler2,
 pcorbshrink,,,propr,--metric pcor.bshrink,,
 propr,,,propr,--metric rho,,
 cor,,,propr,--metric cor,,
diff --git a/conf/test_experimental.config b/conf/test_experimental.config
@@ -29,7 +29,7 @@ params {
     input = 'https://raw.githubusercontent.com/nf-core/test-datasets/modules/data/genomics/mus_musculus/rnaseq_expression/SRP254919.samplesheet.csv'
     matrix =  'https://raw.githubusercontent.com/nf-core/test-datasets/modules/data/genomics/mus_musculus/rnaseq_expression/SRP254919.salmon.merged.gene_counts.top1000cov.tsv'
     contrasts =  'https://raw.githubusercontent.com/nf-core/test-datasets/modules/data/genomics/mus_musculus/rnaseq_expression/SRP254919.contrasts.csv'
-    pathway = "propd,propr,cor,propd_grea"
+    pathway = "propd,propd_grea,limma,propr,cor"
 
     // some pathways are not included in the test, because they don't make sense to test for this dataset
     // for example propd_fdr don't give significant results on this dataset, and the permutation will be scaped