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Questions tagged [scipy]

SciPy is an open source library of algorithms and mathematical tools for the Python programming language.

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2 votes
1 answer
80 views

"Flattening" a 2D STM image by subtracting an Nth order polynomial without typing out all the terms for each N?

I have some scanning tunneling microscopy (STM) topography images that I need to flatten. I have found that for some data I need a 4th order polynomial, but in other cases a lower order works better. ...
uhoh's user avatar
  • 473
4 votes
2 answers
164 views

Matrix Factorisation class packaging methods for factorisation of explicit & implicit data matrices using Gradient Descent, SGD and ALS

Attached below, and also as this GitHub gist, is code for a Python class I wrote as part of a personal learning/portfolio project on collaborative-filtering recommender systems via matrix ...
Cosmic Fan's user avatar
1 vote
2 answers
112 views

Python 3.10+ deconstructing an over engineered solution to better understand how metaclasses work with properties, static methods, and classmethods

TL;DR This question examines an over-engineered example of python metaclasses and dataclasses to create a LiteralEnum (for validating a stringly-typed keyword ...
SumNeuron's user avatar
  • 271
2 votes
1 answer
94 views

Local solver built into a global one

I am trying to optimize writing a script that has 2 minimizations, one dependent on the other. My code is a bit bloated, and I find the global parameters that I am solving for depend quite strongly on ...
samman's user avatar
  • 471
8 votes
2 answers
522 views

Fourier Series of a given function

This is a very simple code that expresses a function in terms of Trigonometric Fourier Series and generates a animation based on the harmonics. I would like to know some ways to improve the ...
Lipe's user avatar
  • 83
1 vote
1 answer
65 views

Fixing math library functions in Black-Scholes options pricing model

I've amended a code for the Black-Scholes formula for European pricing options found here at the bottom of the page and fixed the math functions accordingly. Unlike the code on the website, mine has ...
Jessie's user avatar
  • 113
9 votes
1 answer
4k views

Python decibel meter-accurate?

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ijknm's user avatar
  • 99
2 votes
2 answers
1k views

Solving the TDoA multilateration problem in 3-dimensions

Background. I've written an algorithm to solve the Time Difference of Arrival (TDoA) multilateration problem in 3-dimensions. That is, given the known coordinates of ...
10GeV's user avatar
  • 295
2 votes
1 answer
235 views

Integration loop over multiple doping and temperature levels

I want to perform some calculations on a large dataset. The code can be found below, where I want to calculate the values for 'results_nr' over a large loop (1000 x 910) values. Can you help me out ...
thimoooh's user avatar
0 votes
1 answer
106 views

Optimization using a differential evolution technique, ideally with a million iterations

I'm working on an optimization code using differential evolution to solve. However, it is taking a long time to get the solution. See that I have a variable called number_of_iterations that must equal ...
krisllen's user avatar
0 votes
1 answer
307 views

Approximation of the multiplicative matrix inverse (linalg.inv ())

I am trying to compute the multiplicative inverse of a large matrix (~ >40,000x40,000). This can be done with e.g. numpy.linalg.inv or ...
Stücke's user avatar
  • 103
1 vote
1 answer
153 views

Calculate correlation of genes stored in dataframe rows

This script is to calculate the Spearman correlation of genes that are stored in rows of a pandas dataframe. The original df has around 2000 row names. With my current code, this requires 2000*2000 ...
Apex's user avatar
  • 129
5 votes
1 answer
86 views

Rainbow Trails Video Effect

This is an effect to augment juggling videos: The goal of this effect is to add a rainbow trail to a video using a tracked set of points. Link to source video Link to source data Link to complete ...
Stephen Meschke's user avatar
2 votes
2 answers
994 views

Applying Minimum Image Convention in Python

I am computing pairwise Euclidean distances for 3-D vectors representing particle positions in a periodic system. The minimum image convention is applied for each periodic boundary such that a ...
Daniel's user avatar
  • 21
3 votes
0 answers
466 views

Speed up interpolation in Python

I am trying to plot heatmap with three variables x, y and z, each with vector length of 932826. The time taken with the function below is 28 seconds, with a bin size of 10 on each x and y. I have been ...
Masoom Kumar's user avatar
5 votes
1 answer
201 views

compare between two labels /objects -dominance rules

I have a function dominates() that seems to be the bottleneck of my algorithm (after profiling it). the function is as follows: ...
sos's user avatar
  • 151
1 vote
0 answers
17 views

LP constraint problem with scipy

For this graph and its vertex cover I try to compare the LP solution with the optimal and the rounded solution. ...
Niklas Rosencrantz's user avatar
1 vote
1 answer
294 views

Reduce one for loop to decrease time complexity

I'm using NumPy to find out langrage polynomial interpolation. I'm using 2 for loop to find out langrage polynomial, but I want to reduce 2nd for loop so that my code time complexity can be less. Can ...
Oronno Akash's user avatar
1 vote
0 answers
249 views

Numerical Double Integration using numba and scipy

Please see the following code. I am using it to calculate the double integration. Please help me to improve the code. ...
Shankar_Dutt's user avatar
1 vote
1 answer
1k views

What would be the computationally faster way to implement this 2D numerical integration?

I am interested in doing a 2D numerical integration. Right now I am using the scipy.integrate.dblquad but it is very slow. Please see the code below. My need is to ...
Shankar_Dutt's user avatar
1 vote
0 answers
163 views

Custom Model intended to be used for Curve Fitting. Vectorization vs For Loop and jit numba capabilities

I am new to community and please pardon me if I didn't provide information as intended. This code is supposed to be creating a custom model which will be used with ...
Shankar_Dutt's user avatar
1 vote
0 answers
51 views

Python Implementation of Canopy Structural Dynamic Model using scipy.optimize.least_squares

I am using the least_squares() function from the scipy.optimize module to calibrate a Canopy structural dynamic model (CSDM). The calibrated model is then used to predict leaf area index (lai) based ...
ABC's user avatar
  • 111
3 votes
1 answer
287 views

Optical dispersion calculation from spectrograms with Python

First, I'd like to provide a little explanation on what my code is supposed to do. It is part of a middle-sized project. I restructured the code to work on its own, and also added little comments to ...
Péter Leéh's user avatar
3 votes
1 answer
720 views

Many parameter curve-fitting

In my project I have to make curve-fitting with a lots of parameters, so scipy curve_fit struggles to find the answer. For example: \$\ c_0 + c_1 \cdot cos (b_0 + b_1\cdot x + b_2\cdot x^2+ b_3\cdot ...
Péter Leéh's user avatar
4 votes
1 answer
638 views

Counting Bouncy Numbers: Project Euler #113

Problem statement: Working from left-to-right if no digit is exceeded by the digit to its left it is called an increasing number; for example, 134468. Similarly if no digit is exceeded by ...
Stokolos Ilya's user avatar
5 votes
2 answers
148 views

A/B testing using chi-square to calculate the significance in an elegant way

The definition of ABtest Goal: For input data, each pair row is a group such as 0 and 1, 2 and 3. I want to test whether each group is significant using chi-square. If result is significant and ...
Jack's user avatar
  • 161
3 votes
0 answers
628 views

Double pendulum real time plot

Double Pendulum I made a little application that embeds a matplotlib dynamic plot into tkinter that enables control through the ...
Bruno Vermeulen's user avatar
5 votes
2 answers
856 views

Simulation of spring-loaded inverted pendulum

I've finally committed to moving to Python 3 from MATLAB. I'm currently porting my MATLAB code, and I'm sure I'm missing a lot of common best-practices. For reference, I'm simulating a spring-loaded ...
Steve Heim's user avatar
13 votes
1 answer
1k views

Factorio analysis: data munging

This project is... a little ridiculous. It's working, but it's a complete mess. Data about Factorio's game economy are pulled from the wiki via the MediaWiki API, scrubbed, preprocessed, and thrown ...
Reinderien's user avatar
  • 62.1k
1 vote
0 answers
114 views

Scipy basinhopping custom step update and constrained looping

I am searching for the global minimum of a certain function and trying to use its gradient (here same as Jacobin) to guide the step counter. However, my x is fix ...
SuperKogito's user avatar
3 votes
0 answers
2k views

Local maxima 3D array python

I'm trying to find the local maxima in a 3D numpy array, but I can't seem to find an easy way to do that using numpy, scipy, or anything else. For now I implemented it using ...
theobdt's user avatar
  • 31
6 votes
1 answer
201 views

Monte Carlo errors estimation routine

I would value your opinion on the following piece of code. I am rather new to both Python and Monte Carlo analysis, so I was wondering whether the routine makes sense to more experienced and ...
Shawn Marion fan's user avatar
2 votes
0 answers
53 views

Solve multi-dimentional optimization problem using basinhopping

I am searching for an optimization solution, which is a 8d vector representing 4 complex elements, where each element is within the complex circle with maximal radius 1.2. The objective function is: ...
SuperKogito's user avatar
6 votes
1 answer
405 views

Reading sparse matrix from binary file

I have binary files containing sparse matrices. Their format is: number of rows int length of a row int column index int value float Reading ...
Pallie's user avatar
  • 161
4 votes
1 answer
371 views

Fast distance calculation for Starcraft2 bot

I am coding a bot for Starcraft 2, in which many distances have to be calculated every frame. Here is the part of the library that is being used and I want to improve: https://github.com/Dentosal/...
Tweakimp's user avatar
  • 769
2 votes
1 answer
314 views

Convert list of dictionaries to iterable list

Due to another module coupled to my function, I can only receive the input to my part in the form of a JSON object structured roughly like this: ...
dennlinger's user avatar
3 votes
1 answer
90 views

Simple natural language classifier

This program estimates the likelihood for a string to belong to a certain natural language by computing the cosine similarity between an input string's and several natural languages' letter frequency, ...
Passa's user avatar
  • 33
6 votes
1 answer
2k views

Spearman correlations between Numpy array and every Pandas DataFrame row

I want to efficiently calculate Spearman correlations between a Numpy array and every Pandas DataFrame row: ...
Roman Prilepskiy's user avatar
2 votes
1 answer
82 views

Implement metaclass for Maximumlikelihood estimator

For the purpose of defining a lot of Maximum Likelihood estimators, I think I need a metaclass. At the moment I have to copy/paste a lot of code for every new class definition and just substitute the ...
mcocdawc's user avatar
  • 944
2 votes
1 answer
104 views

Grade of Service Probability Function Python

Consider the following typical probability scenario: I defined this function to handle that scenario, I'm curious if Python has a more efficient method to handle this, or if this is the best way: <...
Hanzy's user avatar
  • 247
7 votes
1 answer
670 views

2d linear Partial Differential Equation Solver using finite differences

This is code that solves partial differential equations on a rectangular domain using partial differences. fd_solve takes an equation, a partially filled in output, ...
Oscar Smith's user avatar
  • 3,597
1 vote
1 answer
202 views

Ensuring performance of sketching/streaming algorithm (countSketch) [closed]

I have implemented what is know as a countSketch in Python (page 17: https://arxiv.org/pdf/1411.4357.pdf) but my implementation is currently lacking in performance. The algorithm is to compute the ...
charl's user avatar
  • 19
7 votes
2 answers
641 views

Calculate electric field of a charged annulus

This script calculates the shape of the electric field on a 2D grid perpendicular to a uniformly charged annulus using SciPy's dblquad (tutorial, documentation). I'...
uhoh's user avatar
  • 473
1 vote
0 answers
7k views

Fuzzy c Means in Python

This is my implementation of Fuzzy c-Means in Python. In the main section of the code, I compared the time it takes with the sklearn implementation of kMeans. ...
Avisek's user avatar
  • 195
5 votes
1 answer
309 views

Probability of event using Central Limit Theorem + plotting results

I've been doing a Udemy course called: "Statistics for Data Science" and I decided to solve one of the homework with Python to kill two birds with one rocket #elon. The task was: The team of ...
Mateusz Konopelski's user avatar
4 votes
1 answer
482 views

kNN with Python

I'm writing a k nearest neighbors implementation to solve multiclass classification. ...
erip's user avatar
  • 926
3 votes
0 answers
570 views

Compute distance matrix using DTW acceptable for scipy.cluster.hierarchy

I am new to both data science and python. I have a dataset of the time-dependent samples, which I want to run agglomerative hierarchical clustering on them. I have found that Dynamic Time Warping (DTW)...
user3933607's user avatar
14 votes
1 answer
12k views

Farthest point algorithm in Python

I am learning Python and I tried to do a program to find K points from a set of N points, farthest as much as possible (I'm not ...
Sigur's user avatar
  • 275
4 votes
0 answers
710 views

Find the closest parametric values corresponding to a BSpline's control points

On a curve generated by scipy.interpolate.BSpline I want to find the closest parameters relative to each control point, so that the given parametric range is ...
Fnord's user avatar
  • 383
3 votes
0 answers
450 views

Applying Scikit-Learn Linear Kernel with a generator for low memory pressure

matrix = # a sparse matrix of TFIDF vectors - 28458x3218988 My aim was to create a similarity matrix comparing all documents to all documents using ...
James Allen-Robertson's user avatar