tharos-ux / gfagraphs

Library to parse, edit and handle in memory GFA graphs

Welcome to Siegfried Dubois's Profile 👋

I'm programming in many languages, though most of my code here is written in Python.

• 👋 Hi, I’m Siegfried (He/Him)
• ❤️ I love algorithm creation, optimization and obfuscation.
• 🌱 I’m currently mainly a Python developper.
• 💼 I'm a PhD student at INRIA, in Brittany.
• 📖 I used to have courses about teaching and vulgarization.
• 🐲 I'm a roleplayer, some of my repos are linked to this hobby!
• 🎥 I do enjoy filmmaking, and have many ongoing projects.
• 🐱 I may like cats, also. Maybe a lil' too much. Meaow.

gfagraphs's Issues

Handling nodes of pangraph

Pangraph appears to be using chars as node identifiers. As of now, the tool strips characters to keep digits, and use integers to walk through the graph.

Potential fix : use int <-> node name mapping in such cases

Pre 3.10 compatible?

Hi,

I am interested in trying out your tool. I wonder if there is anything in the code that is not compatible with earlier python versions than 3.10, and if not, whether you could update the package in the index. I could get my hands dirty and just use/adapt the sources, but I'd like to just install a compatible version from pypi.

thanks

Clear separation between parsing and visualisation

As pinpointed in #1, it happens that those two concepts aren't connected thus they are in the code. This issue needs to address this.

TODO

• NetworkX representation should be disconnected to visualization, but still be its backbone
• A more clear documentation on how to use those functions should be made

Improving graph structure

It has been asked to add method for starting and ending nodes search, as well as a graph initialisation method of the NetworkX structure without edge duplicates to help with usage of the lib.