Alicia Schep

NucleoATAC is pretty specifically targeted towards ATAC-seq data. In the paper, we also showed it could be used for MNase, but that required using a V-plot learned from Mnase (default...

Hi @avilella I don't have any detailed instructions for applying NucleoATAC to MNase. As for alternative methods, I'd suggest checking out the method in https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5094857/ Haven't tried it out, but...

I think this is a bug -- e.g. the intention is that `occ` can be run without fasta (in which case no Tn5 bias correction is performed) but that there...

This might be the same issue as #55, which I still haven't figure out how to fix :/ You could try running the example

Perhaps a meta-project could be creating an overview of how to create a good review of similar packages: * How should such a review be organized? * Where should it...

Thanks @bzkrouse for this linking this to thread #23, I hadn't read through that one yet, and some of the goals are certainly shared, although I think this idea is...

Definitely don't mind, looks great! In terms of my original idea, there were two related goals, one of which was linking dependencies across R files (without having to create your...

I'd describe the status as "dormant". Hasn't been updated in a while, but still trying to keep a loose eye on issues and hope to be able to keep the...

yes, feel free to use! Although I think in the [other thread](https://github.com/vegawidget/altair/issues/82) it was mentioned that the validation library might not be fully compatible with the vegalite schema though

It looks like vega editor [uses ajv](https://github.com/vega/editor/blob/master/src/utils/validate.ts), and that there already is an ajv wrapper for R: https://cran.r-project.org/web/packages/ajv/index.html