seurat VS osmnx

So there is an issue with the ModularityOptimizer? I looked it up and it comes from this script: https://github.com/satijalab/seurat/blob/master/src/RModularityOptimizer.cpp

With regards to using selected features for UMAP, my gut tells me it's possible, but it looks like the folks here were having some issues getting it work. Your mileage may vary.

The strangest thing is that I'm not even a follower of this repo where the discussion was started, which by the way is a R toolkit for single cell genomics.

There is a good wiki of the Seurat data object and information about the slots and objects can be found here: https://github.com/satijalab/seurat/wiki

Here is link number 1 - Previous text "1"

Wow, it's not easy to find, indeed. They should do a better job commenting the code, and documenting the code organisation. But it's all in the Github repo, for example NormalizeData is defined here: https://github.com/satijalab/seurat/blob/4e868fcde49dc0a3df47f94f5fb54a421bfdf7bc/R/generics.R#L337

You want osmnx

OSM road network data was analyzed using osmnx (https://github.com/gboeing/osmnx). Plotted using QGIS.

I think you’re hitting this issue right now: https://github.com/gboeing/osmnx/issues/832

RDS-TMC transmits traffic data over FM radio. https://en.wikipedia.org/wiki/Traffic_message_channel Some is encrypted, some not.

It might be possible to model traffic with OSMnx to assign weights to roads by expected traffic levels https://github.com/gboeing/osmnx

Depending on where you live you might be able to get traffic data and maybe traffic models from public authorities using Freedom of Information requests.

Osmnx might also be a way to download data for the whole country. It breaks the area up in smaller parts automatically and also downloads the parts from Overpass. https://github.com/gboeing/osmnx

You can make your own with a variety of tools, but I like the results from OSMnx offhand.

I have no idea if this works for such large regions, but https://geoffboeing.com/publications/osmnx-complex-street-networks/ is an awesome tool to visualize street (and maybe bike) networks.