Simon Merkt

Without transparency correlation plots can hide information e.g.  Light to dark in prediction plots can be counter intuitive 

I would say, it is not really more complex to rewrite the plot level specifications for each line of a `plotId`. But it is definitely redundant. Plus for tsv is...

Although availability of data and model is claimed, it does not appear in the supplementary section. I will write them an email.

Model yes, data not yet. There might be the option to collect it ourselves, though. Because all data used seems to be published before by several labs.

They provided the SBML model. But not yet the data. I can ask again, in case the second email was lost.

So the data is available through other publications. I will do LeonardSchmiester/Benchmark-Models-PEtab#10 first, since this is the main source for the used data.

currently on hold for time reasons. If anyone else wants to go for it, please do so.

currently on hold for time reasons. If anyone else wants to go for it, please do so.

Since a lacking visualization file is not a PEtab error, reopening LeonardSchmiester/Benchmark-Models#53 didn't seem to fit. But of course this can be discussed. Also re-opening all models' issues could work...

Fujita does not actually have a file yet. It only serves as example for no-file visualization in PEtab. Hence I removed it from the list. Thanks @erikadudki for pointing it...