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Code repository for the analysis of the Genotype-Phenotype Map Properties of the Integer Polyomino Model.
Home Page: https://www.tcm.phy.cam.ac.uk/profiles/vatj2/
License: MIT License
CMake 0.98%
Jupyter Notebook 28.93%
Python 32.40%
C++ 37.70%
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gpmap_integer_polyomino's Issues
Does graph_topo need to be additionally added to local directory?
If we make a pypi package, it should be 1 click installable, not require many steps.
What
Duplicates should be taken from the same list that generated the 3 tile space
Why
Removes confusion over parentless duplicates and childless 3 tiles.
How
Save 3 tile list to file, read file, duplicate based on given list
(do we want to strip isomorphic duplicates, it is meaningful that they are twice as common...)
What
ID genotype features like
free faces
total number of interactions
assembly graph features
branching points
cycles
SIFs
Why
Better understand phenotype space in general, and specifically how duplication effects different subunits.
How
reconstruct info based on the reference genotype present in set metric file
It is confusing to install and use this repo from scratch.
clarify state system requirements (CMake etc.)
improve usage of quickstart files
remove clutter (privateSainsburyPresentation etc.)
comment more on user interface side
command line option?
docs and tests folders are basically nonfunctional