Skip to content

Issues: Treblesteph/network_evo

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

37 Open 56 Closed
37 Open 56 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

Non-mutated fittest networks still disappearing bug
#96 opened Nov 17, 2015 by Treblesteph
@Treblesteph
Make an additional fitness cost to clustering (niching), so population remains diverse. enhancement GA specific
#94 opened May 28, 2015 by Treblesteph
@Treblesteph
Problem encountered when trying to add isequal method for Network bug
#93 opened May 28, 2015 by Treblesteph Maternity leave
@Treblesteph
Fitness keeps jumping up in new, faster version of code. bug
#92 opened May 28, 2015 by Treblesteph Maternity leave
@Treblesteph
2
Slow running in parallel. help wanted Runtime optimisation
#91 opened Apr 28, 2015 by Treblesteph
@Treblesteph
Fitness not going down when running in parallel. bug help wanted
#90 opened Apr 28, 2015 by Treblesteph Maternity leave
@Treblesteph
1
Concentration time series plots for genes 3 and 4 might come out wrongly... bug
#89 opened Apr 13, 2015 by Treblesteph
@Treblesteph
Perhaps I should be calculating the harmonic mean over days for overall fitness.
#88 opened Apr 13, 2015 by Treblesteph
@Treblesteph
Don't run simulation following crossover between identical parents Runtime optimisation
#87 opened Apr 13, 2015 by Treblesteph
@Treblesteph
Possible bug - when mutations were switched off, crossovers did not seem to function. bug GA specific
#86 opened Apr 12, 2015 by Treblesteph
@Treblesteph
Mutations only happen to one thing at a time - this is not the desired behaviour enhancement GA specific
#84 opened Apr 12, 2015 by Treblesteph
@Treblesteph
Running evolved networks in continuous time after they have been evolved in boolean system. enhancement
#83 opened Apr 2, 2015 by Treblesteph
@Treblesteph
1
Check that semi-continuous method is valid alternative.
#82 opened Apr 2, 2015 by Treblesteph
@Treblesteph
Give networks with environmental noise more time to converge to clocks. bug
#81 opened Apr 2, 2015 by Treblesteph Maternity leave
@Treblesteph
1
Save fittest network to a file every 100 generations (and overwrite) in case evo takes ages. enhancement Runtime optimisation
#79 opened Mar 26, 2015 by Treblesteph Maternity leave
@Treblesteph
Parallel code is using ~30GB RAM - need to delete timeseries when finished with. Runtime optimisation
#77 opened Mar 26, 2015 by Treblesteph
@Treblesteph
Get rid of non-clocks (fitness >=0.1) in data collection function from make_troein_fig2
#76 opened Mar 26, 2015 by Treblesteph
@Treblesteph
Read about differences in limitations of behaviours modelled with boolean vs ode models.
#75 opened Mar 25, 2015 by Treblesteph
@Treblesteph
Make function to count circadian oscillators.
#62 opened Feb 19, 2015 by Treblesteph
@Treblesteph
3
Add number of circadian oscillations count to network cartoon.
#60 opened Feb 19, 2015 by Treblesteph
@Treblesteph
Finish off repression/activation counting function.
#58 opened Feb 19, 2015 by Treblesteph
3 tasks
@Treblesteph
Write tests for repression/activation counting function.
#57 opened Feb 19, 2015 by Treblesteph
@Treblesteph
Explore the effect of &&/|| gates in Troein figure 1 networks.
#56 opened Feb 11, 2015 by Treblesteph
@Treblesteph
Sort out labelling of genes in concentration plot in plotOutput.jl help wanted
#48 opened Feb 6, 2015 by Treblesteph
@Treblesteph
1
Ideas for experiments that can only be done in the faster boolean framework.
#46 opened Feb 5, 2015 by Treblesteph
@Treblesteph
2
ProTip! Adding no:label will show everything without a label.