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google
pyglove

Manipulating Python Programs

558K 710 33
cogent3
cogent3

Comparative Genomics Toolkit 3

25K 134 67
emilydolson
phylotrackpy

Python phylogeny tracker for in silico evolution experiments

14K 11 2
jlsteenwyk
phykit

a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies

13K 84 8
jlsteenwyk
clipkit

a multiple sequence alignment-trimming algorithm for accurate phylogenomic inference

7K 89 5
mRcSchwering
magicsoup

MagicSoup is a game that simulates cell metabolic and transduction pathway evolution. Define a 2D world with certain molecules and reactions. Add a few cells and create evolutionary pressure by selectively replicating and killing them. Then run and see what random mutations can do.

6K 2 0
pioreactor
pioreactor

Hardware and software for accessible, extensible, and scalable bioreactors. Built on Raspberry Pi.

5K 140 16
lucidrains
evolutionary-policy-optimization

Pytorch implementation of Evolutionary Policy Optimization, from Wang et al. of the Robotics Institute at Carnegie Mellon University

4K 108 4
Christopher-K-Long
py-ste

A Python package for evolving unitaries and states under the Schrödinger equation using first-order Suzuki-Trotter and computing switching functions.

4K 5 1
Atlantic83
neocoder

neoCoder - AI-Native Engineering Agent for Enterprise-Scale Codebase

4K 2 0
lucidrains
x-transformers-rl

Implementation of a transformer for reinforcement learning using `x-transformers`

4K 73 6
faridrashidi
trisicell

No description available

3K 14 2
PasaOpasen
oppoppopinit

PyPI package containing opposition learning operators and population initializers for evolutionary algorithms

2K 6 2
lucidrains
x-evolution

x-evolution

2K 49 6
faridrashidi
scphylo-tools

A python toolkit for single-cell tumor phylogenetic analysis

2K 7 1
jlsteenwyk
jlsteenwyk-biokit

No description available

2K 22 10
charlesrocabert
metevolsim

MetEvolSim (Metabolome Evolution Simulator). A Python package to simulate the long-term evolution of metabolic levels.

2K 5 0
InnovativeAI-adaad
adaad

ADAAD — Autonomous Device-Anchored Adaptive Development. Full local AI ecosystem (Beast Mode, Dream Mode, Cryovant, Aponi Dashboard).

2K 9 1
phenopype
phenopype

A phenotyping pipeline for Python

1K 13 4
david-schaller
asymmetree

Simulator for species and gene trees with asymmetric evolution rates

1K 7 2
tusharhero
darwinio

Evolution Simulator

1K 20 8
DessimozLab
fastoma

FastOMA is a scalable software package to infer orthology relationship.

1K 97 17
pablocarderam
opqua

Epidemiological modeling framework for pathogen population genetics and evolution.

1K 18 7
harmslab
gpmap

A Python API for managing genotype-phenotype map data

852 12 8
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