Some good examples of DH networks came up in this thread today: https://twitter.com/jaheppler/status/654685766010867712

Reading this literary networks article today: http://onlinelibrary.wiley.com/doi/10.1111/milt.12126/abstract

“I want to suggest that Milton’s poetics of the present must be understood in terms of an extended social network, composed of distant, weak ties. I have turned to Actor-Network Theory (ANT) and to the digital visualization tools described below in order to provide a more comprehensive approach to this network than current models of historicization or literary analysis allow. In doing so, I hope not only to reach a better understanding of Milton’s poetics, but also to do so in a way that counters the persistent view of him as an autonomous, even isolated, author.”

ouch, that Zotero rss output is the worst

I’m disabling it for now, will take a look at the way they’re doing it over int #geospatial soon

Preaching to the choir and self-promoting, but here’s http://belfastgroup.digitalscholarship.emory.edu

Hey, what’s the story with Gephi? I know they had that blogpost pretty recently where they were like, “We’re working on it!” But I haven’t seen any evidence of that, apart from the post. Are people transferring loyalties to Cytoscape or something else?

^ ditto

+2

Im transferring to Cytoscape

Gephi is like, so many headaches …

seems like gephi is dying a bit

so many headaches, @thomaspadilla. I’m like, why am I using this again?

I’m glad to know that I’m not the only one experiencing problems with Gephi. I’ve tried several times in vain, for example, to connect Neo4j and Gephi. Thanks very much for the reference to Cytoscape, which I hadn’t heard about. Look forward to giving it a try.

RStudio and igraph also a nice combo for network analysis. I gave up on gephi when i ran into Java version problems.

I know @miriamposner , every time I curse the prior version of myself. The java stuff and the stuff you need to do to get it to work at workshop/class scale is crazytimes.

Speak of the :smiling_imp: https://gephi.wordpress.com/2015/11/02/announcing-gephi-0-9-release-date/

TL;Dr: java problems fixed, multiplex networks & parallel edges supported

Plus improved timestamps

¯_(ツ)_/¯

j/k

this looks promising, just wary of another dip in support

for cytoscape, I think Tom Brughmans (archaeologist) has some useful tutorials around, I’ll have a looksee.

+1 to the iGraph python library. Does great stuff. You can output network graphs that have already been colored, sized, and laid out for display in Sigma.js, for example.

I was not aware of iGraph, sounds interesting. I’ve been using networkx for all my python network graph code, but it looks like I should really reconsider that… https://graph-tool.skewed.de/performance

I was using networkx, but ran into some file format issues and discovered that igraph is far more powerful. lots more features, etc.

HALP, Ive fallen down the Cytoscape hole, and I cant get out :confused:

if you’ve started to visualize your networks, you’ve already lost

/giphy vader

There’s also the Sci2 workbench, which Scott Weingart is involved with.

@mwidner I wonder if sigma + igraph could work well in jupyter notebooks, hmm

@mdlincoln: i really liked how the graph visualizations in your presentation at mith the other day were line graphs

https://vimeo.com/144138534 in case anyone is interested :smile:

Thanks :simple_smile: I think when it comes to dynamic networks in particular, visual representations of the nodes and edges themselves tend not to communicate the changes in network properties that force-directed layouts or what have you just don’t do well with anyway

so that was a case of illustrating the change-over-time of one or two particular properties of the network

@edsu If so, I’d like to see it in action! I haven’t gotten into notebooks yet, but should…

I know this isn’t my personal help desk, but I was just wondering if anyone with more D3 experience has a suggestion for why my ^%&(&* labels aren’t showing up here: http://bl.ocks.org/miriamposner/18b0916f5ce45c514799

Afraid I have nothing to offer on D3! If it’s any consolation, I’m suffering R igraph problems tonight. Anyone know how to get subgraphs to plot properly: http://stackoverflow.com/questions/33622367/plot-a-subgraph-using-the-full-graph-layout

Also FWIW, anyone using R who finds themselves needing to make a reproducible example needs to check out Jennifer Bryan’s reprex package right this second: https://github.com/jennybc/reprex

@mdlincoln, I think I got it, via Twitter! Something something text child something something.

Something something text child something something Great, that can go on the tshirts for the next conference

:thumbsup:

How to decide whether or not you really need to visualize that network you constructed: http://yro.ch/visualising-networks-part-1-a-critique/

Woah that place is awesome :heart_eyes_cat: Thank you @mdlincoln for sharing my post, that’s how I could find this channel. Did you solve your problem with subgraph plotting? I think I can help.

@yrochat: yes! turns out for what I was trying to do, I just needed to “hide” the vertices graphically (set them transparent) rather than remove them from the igraph object

@mdlincoln: another solution (if you want/need to extract the subgraph) would be to select the corresponding subset in the layout matrix.

On the hairball discussion… here’s a nice spatial network from the NYTimes. http://www.nytimes.com/interactive/2015/11/12/us/gun-traffickers-smuggling-state-gun-laws.html . Obviously not the first spatially-rendered network but an attractive example.

I like the use of transparency to tone down the edges with the lightest weight

Wow, that’s quite good for a non-interactive network visualisation.