Git Product home page Git Product logo

escher.jl's People

Contributors

josepereiro avatar stelmo avatar

Stargazers

 avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar

Watchers

 avatar  avatar

Forkers

josepereiro

escher.jl's Issues

TagBot trigger issue

This issue is used to trigger TagBot; feel free to unsubscribe.

If you haven't already, you should update your TagBot.yml to include issue comment triggers.
Please see this post on Discourse for instructions and more details.

If you'd like for me to do this for you, comment TagBot fix on this issue.
I'll open a PR within a few hours, please be patient!

Reaction directionality

Is it possible to preserve reaction directionality when plotting metabolic models with escherplot!() using arrows! instead of lines!?

Reversible reaction arrows not showing

Hi again,

It's been a while since I've used Escher.jl for visualizing networks and am having issues with reversible reactions only showing arrowheads in one direction. I updated to Escher.jl version v0.6.5 and was following your tutorial with the E. coli core model from Bigg/Escher. From what I remember, there was no issue the first time you implemented reaction directions, but I haven't done any regression testing.

using Escher, CairoMakie, ColorSchemes
rd = Dict(
    "PGM" => (Dict("3pg_c" => 1, "2pg_c" => -1), :r),
    "PYK" => (Dict("pep_c" => -1, "adp_c" => -1, "h_c" => -1.0, "atp_c" => 1.0, "pyr_c" => 1), :f)

f = Figure(resolution = (1200, 800));
ax = Axis(f[1, 1]);
escherplot!(
    ax,
    "/path/to/escher-map-file/e_coli_core.Core metabolism.json",
    reaction_directions = rd,
    reaction_arrow_size = 12,
    reaction_show_text = true,
)
hidexdecorations!(ax)
hideydecorations!(ax)

The resulting plot is identical to yours with only a single arrow head for the reversible PGM reaction.

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    ๐Ÿ–– Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. ๐Ÿ“Š๐Ÿ“ˆ๐ŸŽ‰

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google โค๏ธ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.