Jared Simpson

Sorry, nanopolish does not support pod5s. I planned to do this but since there are better options available for most things nanopolish does it wasn't a development priority.

I believe both f5c and uncalled4 can. Or you can use ONT's conversion tools to generate fast5 from pod5.

Its fairly stable right now but lacking some documentation. Is there a feature you are looking for? On Wed, Feb 1, 2023 at 2:00 PM PanZiwei ***@***.***> wrote: > Hi,...

Thanks @mmokrejs for the detailed report. Do you remember how you configured your installation of sparsehash? It should not be looking for std::hash and should have no problems compiling with...

Thanks. I don't see anything there would cause a problem. Can you paste the contents of your sparsehash/internal/sparseconfig.h file?

Ok, that confirms your sparsehash is configured to assume c++11 hash functions are available. I am reluctant to change the dialect to c++11 just over this issue. SGA is no...

Hi, Sorry for this. Here is how you can compile SGA using conda to install the dependencies (you'll have to change the conda paths): ``` conda create --name sga conda...

This was intentional but probably not a good idea. The coordinates part (`0 46 50 3 49 50`) is an SGA object that has its own serialization function that uses...

I think sga-preqc-report.py should work with python3. sga-joinedpe is a small unimportant utility program. sga-align should be deprecated. sga-astat should be updated.

Hi Sam, This repository is for reproducing the results in our paper. If you want to use our methylation calling tool it is located here: github.com/jts/nanopolish There is a tutorial...