RNAAnnotateTranscriptionFactor - return all tfs?

Question

RNAAnnotateTranscriptionFactor - return all tfs?

f6v opened this issue 3 years ago · 2 comments

f6v commented 3 years ago

RNAAnnotateTranscriptionFactor has a top.tf argument. However, is there a way to return the whole list?

Thanks!

Answer 1 · 2021-03-27T04:17:46.000Z

Hi, can you try a large top.tf number? @baigal628 is it possible to return the whole list?

Answer 2 · 2021-04-05T23:40:54.000Z

Hi,

After running LISA2 with RNAAnnotateTranscriptionFactor(), you will get a list of predicted TFs for each cluster under {project}.lisa/ folder. The file name should be {cluster_id}.txt.lisa.tsv. Or you can also find a file called {project}_lisa.txt in your working directory which summarized all the common predicted TFs for each cluster.