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naikai / sake

sake
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failed to download of NMF results and NMF plot #73

Open zhuxqdoctor opened 5 years ago

zhuxqdoctor commented 5 years ago

Hi, I was running sake using Rstudio in linux. I got five NMF clusters output. However, I could not download the NMF results as well as the NMF plot. The details are as below: for NMF results download: ERROR: None of the features passed through default NMF filtering criteria, please manually specify number of genes from each group or use 'select features by Rank'. for NMF plot download: ERROR: Invalid empty subset object subsetRow. Does anyone know what these error means and give me some suggestions. Thanks.

naikai commented 5 years ago

Usually it means the features in each of the clusters does not pass through the minimum threshold. Please refer to this for more information: https://www.rdocumentation.org/packages/NMF/versions/0.21.0/topics/featureScore

Optionally, we provide the option to specify the number of features (Rank by different metrics) for each cluster. This will return the number of features for each cluster.

HTH