Output Files

Output Files

Here, we assume you've run infercnv using the 2-step method involving 'infercnv::run()'. An output directory is specified in the run() call, and will contain several useful outputs as described below.

• infercnv.png : the final heatmap generated by inferCNV.

• infercnv.references.txt : the 'normal' cell matrix data values.

• infercnv.observations.txt : the tumor cell matrix data values

• infercnv.observation_groupings.txt : group memberships for the tumor cells as clustered.

• infercnv.observations_dendrogram.txt : the newick formatted dendrogram for the tumor cells that matches the heatmap.