SymbolicRegression.jl searches for symbolic expressions which optimize a particular objective.

Latest release	Documentation	Forums	Paper

Build status	Coverage

Check out PySR for a Python frontend. Cite this software

Contents:

• Quickstart
  • MLJ Interface
  • Low-Level Interface
• Constructing expressions
• Exporting to SymbolicUtils.jl
• Contributors ✨
• Code structure
• Search options

Quickstart

Install in Julia with:

using Pkg
Pkg.add("SymbolicRegression")

MLJ Interface

The easiest way to use SymbolicRegression.jl is with MLJ. Let's see an example:

import SymbolicRegression: SRRegressor
import MLJ: machine, fit!, predict, report

# Dataset with two named features:
X = (a = rand(500), b = rand(500))

# and one target:
y = @. 2 * cos(X.a * 23.5) - X.b ^ 2

# with some noise:
y = y .+ randn(500) .* 1e-3

model = SRRegressor(
    niterations=50,
    binary_operators=[+, -, *],
    unary_operators=[cos],
)

Now, let's create and train this model on our data:

mach = machine(model, X, y)

fit!(mach)

You will notice that expressions are printed using the column names of our table. If, instead of a table-like object, a simple array is passed (e.g., X=randn(100, 2)), x1, ..., xn will be used for variable names.

Let's look at the expressions discovered:

report(mach)

Finally, we can make predictions with the expressions on new data:

predict(mach, X)

This will make predictions using the expression selected by model.selection_method, which by default is a mix of accuracy and complexity.

You can override this selection and select an equation from the Pareto front manually with:

predict(mach, (data=X, idx=2))

where here we choose to evaluate the second equation.

For fitting multiple outputs, one can use MultitargetSRRegressor (and pass an array of indices to idx in predict for selecting specific equations). For a full list of options available to each regressor, see the API page.

Low-Level Interface

The heart of SymbolicRegression.jl is the equation_search function. This takes a 2D array and attempts to model a 1D array using analytic functional forms. Note: unlike the MLJ interface, this assumes column-major input of shape [features, rows].

import SymbolicRegression: Options, equation_search

X = randn(2, 100)
y = 2 * cos.(X[2, :]) + X[1, :] .^ 2 .- 2

options = Options(
    binary_operators=[+, *, /, -],
    unary_operators=[cos, exp],
    populations=20
)

hall_of_fame = equation_search(
    X, y, niterations=40, options=options,
    parallelism=:multithreading
)

You can view the resultant equations in the dominating Pareto front (best expression seen at each complexity) with:

import SymbolicRegression: calculate_pareto_frontier

dominating = calculate_pareto_frontier(hall_of_fame)

This is a vector of PopMember type - which contains the expression along with the score. We can get the expressions with:

trees = [member.tree for member in dominating]

Each of these equations is a Node{T} type for some constant type T (like Float32).

You can evaluate a given tree with:

import SymbolicRegression: eval_tree_array

tree = trees[end]
output, did_succeed = eval_tree_array(tree, X, options)

The output array will contain the result of the tree at each of the 100 rows. This did_succeed flag detects whether an evaluation was successful, or whether encountered any NaNs or Infs during calculation (such as, e.g., sqrt(-1)).

Constructing expressions

Expressions are represented as the Node type which is developed in the DynamicExpressions.jl package.

You can manipulate and construct expressions directly. For example:

import SymbolicRegression: Options, Node, eval_tree_array

options = Options(;
    binary_operators=[+, -, *, ^, /], unary_operators=[cos, exp, sin]
)
x1, x2, x3 = [Node(; feature=i) for i=1:3]
tree = cos(x1 - 3.2 * x2) - x1^3.2

This tree has Float64 constants, so the type of the entire tree will be promoted to Node{Float64}.

We can convert all constants (recursively) to Float32:

float32_tree = convert(Node{Float32}, tree)

We can then evaluate this tree on a dataset:

X = rand(Float32, 3, 100)
output, did_succeed = eval_tree_array(tree, X, options)

Exporting to SymbolicUtils.jl

We can view the equations in the dominating Pareto frontier with:

dominating = calculate_pareto_frontier(hall_of_fame)

We can convert the best equation to SymbolicUtils.jl with the following function:

import SymbolicRegression: node_to_symbolic

eqn = node_to_symbolic(dominating[end].tree, options)
println(simplify(eqn*5 + 3))

We can also print out the full pareto frontier like so:

import SymbolicRegression: compute_complexity, string_tree

println("Complexity\tMSE\tEquation")

for member in dominating
    complexity = compute_complexity(member, options)
    loss = member.loss
    string = string_tree(member.tree, options)

    println("$(complexity)\t$(loss)\t$(string)")
end

Contributors ✨

We are eager to welcome new contributors! If you have an idea for a new feature, don't hesitate to share it on the issues page or forums.

Mark Kittisopikul 💻 💡 🚇 📦 📣 👀 🔧 ⚠️	T Coxon 🐛 💻 🔌 💡 🚇 🚧 👀 🔧 ⚠️ 📓	Dhananjay Ashok 💻 🌍 💡 🚧 ⚠️	Johan Blåbäck 🐛 💻 💡 🚧 📣 👀 ⚠️ 📓	JuliusMartensen 🐛 💻 📖 🔌 💡 🚇 🚧 📦 📣 👀 🔧 📓	ngam 💻 🚇 📦 👀 🔧 ⚠️	Kaze Wong 🐛 💻 💡 🚇 🚧 📣 👀 🔬 📓	Christopher Rackauckas 🐛 💻 🔌 💡 🚇 📣 👀 🔬 🔧 ⚠️ 📓
Patrick Kidger 🐛 💻 📖 🔌 💡 🚧 📣 👀 🔬 🔧 ⚠️ 📓	Okon Samuel 🐛 💻 📖 🚧 💡 🚇 👀 ⚠️ 📓	William Booth-Clibborn 💻 🌍 📖 📓 🚧 👀 🔧 ⚠️	Pablo Lemos 🐛 💡 📣 👀 🔬 📓	Jerry Ling 🐛 💻 📖 🌍 💡 📣 👀 📓	Charles Fox 🐛 💻 💡 🚧 📣 👀 🔬 📓	Johann Brehmer 💻 📖 💡 📣 👀 🔬 ⚠️ 📓	Marius Millea 💻 💡 📣 👀 📓
Coba 🐛 💻 💡 👀 📓	Pietro Monticone 🐛 📖 💡	Mateusz Kubica 📖 💡	Jay Wadekar 🐛 💡 📣 🔬	Anthony Blaom, PhD 🚇 💡 👀	Jgmedina95 🐛 💡 👀	Michael Abbott 💻 💡 👀 🔧	Oscar Smith 💻 💡
Eric Hanson 💡 📣 📓	Henrique Becker 💻 💡 👀	qwertyjl 🐛 📖 💡 📓	Rik Huijzer 💡 🚇	Hongyu Wang 💡 📣 🔬	Saurav Maheshkar 🔧

Code structure

SymbolicRegression.jl is organized roughly as follows. Rounded rectangles indicate objects, and rectangles indicate functions.

(if you can't see this diagram being rendered, try pasting it into mermaid-js.github.io/mermaid-live-editor)

The HallOfFame objects store the expressions with the lowest loss seen at each complexity.

The dependency structure of the code itself is as follows:

Bash command to generate dependency structure from src directory (requires vim-stream):

echo 'stateDiagram-v2'
IFS=$'\n'
for f in *.jl; do
    for line in $(cat $f | grep -e 'import \.\.' -e 'import \.'); do
        echo $(echo $line | vims -s 'dwf:d$' -t '%s/^\.*//g' '%s/Module//g') $(basename "$f" .jl);
    done;
done | vims -l 'f a--> ' | sort

Search options

See https://astroautomata.com/SymbolicRegression.jl/stable/api/#Options

Contents

• Toy Examples with Code
• • 1. Simple search
  • 2. Custom operator
  • 3. Multiple outputs
  • 4. Plotting an expression
  • 5. Other types
  • 6. Dimensional constraints
  • 7. Additional features
• API
• • MLJ interface
  • equation_search
  • Options
  • Printing
  • Evaluation
  • Derivatives
  • SymbolicUtils.jl interface
  • Pareto frontier
• Types
• • Equations
  • Population
  • Population members
  • Hall of Fame
  • Dataset
• Losses
• • Regression
  • Classification