NO basenji_hdf5_single.py in my basenji module.

[tzhu-bio]

I have installed basenji with conda. But there is NO basenji_hdf5_single.py & basenji_hdf5_cluster.py in my basenji module.

[davek44]

Those are obsolete scripts to generate training datasets. Use basenji_data.py instead

[tzhu-bio]

Thanks for your reply!

I tried to run the example data and then found the result of basenji_sat_plot.py like this:

Is it normal?

By the way, I have several ATAC-seq data from different tissues. Now I want to compare TF motif activity in different tissues using basenji.

Would you mind giving me some suggestions about this？

[davek44]

No, that's abnormal. The mutation scores appear to be all zeros. Did you use basenji_sat_bed.py to generate the scores? Look for hints as to what went wrong there.