SycamoreLeaf

Hi lthomp. Looks like you opened a [binary HDF5 file](https://support.hdfgroup.org/HDF5/doc/H5.format.html) in a text editor. You may want to try the `tombo text_output browser_files` commands to produce files you can open...

Hi AnunayS. Are you totally sure that your FASTA filepath is correct?

@AnunayS Have you tried removing the leading slashes from the filepaths?

Is your coverage high _everywhere_ on the genome? Can you share, say, a histogram showing that 0.5 occurs unusually often? Have you run these Tombo commands before without running into...

Hi @SAMtoBAM . Thanks for the histogram; that's really helpful. I'm not sure this is an anomaly. If your coverage is that low (around 40 reads on average) then you...

It sounds like you want to run `level_sample_compare`, but your `.tombo.index` files don't have the names that Tombo expects. Tombo guesses the filepath of the index files based on the...

The first column is left by the `to_csv` method. Use `index=False` to get rid of it. The second column is the p-value from a Kolmogorov-Smirnov test of two populations of...

Last year Dr. Stoiber said ONT was working to release example datasets, but I haven't heard anything since. See https://github.com/nanoporetech/tombo/issues/249#issuecomment-634768699

Hi @yzyupup . [Add the `--overwrite` flag](https://github.com/nanoporetech/tombo/issues/189).

@yzyupup can you share a screenshot showing both the command you typed and the output you saw?