protViz / prora

running ora or gsea on lists of proteinidentifiers

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When executing Run_MQTwoGroup_WebgestaltR.R

wolski opened this issue · comments

The script fails when calling webGestaltWrapper

> webGestaltExample <-
+   webGestaltWrapper(
+     grp2 = grp2,
+     enrichDatabase = enrichDatabase,
+     organism = organism,
+     se_threshold = 1.5,
+     nrNas = 5,
+     method = "complete"
+   )
protein_cluster_1.txt was written to output/ORA_inputFiles
protein_cluster_2.txt was written to output/ORA_inputFiles
Error: 'WebGestaltRBatch' is not an exported object from 'namespace:WebGestaltR'

On this occasion, replace grp2 argument with
quant_data and nclust
in webGestaltWrapper argument list.