A collection of tools for biomedical research assay analysis in Python.

Related tags

General Utilitiespythonnumpymodelingcurve-fittingdiagnosticsbiomedical-data-sciencecalibration-curveassayelisaconcentrations
Overview

waltlabtools

Conda PyPI Documentation GitHub

A collection of tools for biomedical research assay analysis in Python.

Key Features

  • Analysis for assays such as digital ELISA, including single-molecule array (Simoa) assays
  • Read instrument-generated files and calculate calibration curves, concentrations, limits of detection, and more
  • Free and open-source software under the GNU General Public License v3

Getting Started

Installation

You can install waltlabtools using Anaconda (recommended) or PyPI. If you're not comfortable with the command line, begin by installing Anaconda Navigator. Then follow these instructions to add the channel tylerdougan, and install waltlabtools from this channel.

Alternatively, install waltlabtools from the command line with conda install -c tylerdougan waltlabtools (recommended; requires you to first install Anaconda or Miniconda) or pip install waltlabtools (requires pip, which should come with Python).

Dependencies

  • waltlabtools requires
  • If installing with pip or conda, numpy and scipy will be installed automatically
  • Specific modules have additional requirements:
  • waltlabtools also plays well with
    • JAX for accelerated numerical computing – waltlabtools will use jax.numpy instead of numpy if jax is loaded
    • JupyterLab for interactively writing code
    • pandas for data import/export and organization
    • matplotlib for plotting
    • scikit-learn for data analysis

All of these packages can all be installed using conda or pip.

Usage

import waltlabtools as wlt  # waltlabtools main functionality
import waltlabtools.read_quanterix  # if using a Quanterix instrument

Development of waltlabtools is led by the Walt Lab for Advanced Diagnostics at Brigham and Women's Hospital, Harvard Medical School, and the Wyss Institute for Biologically Inspired Engineering.

You might also like...
Collection of code auto-generation utility scripts for the Horizon `Boot` system module

boot-scripts This is a collection of code auto-generation utility scripts for the Horizon Boot system module, intended for use in Atmosphère. Usage Us

null 4 Oct 11, 2022
Airspy-Utils is a small software collection to help with firmware related operations on Airspy HF+ devices.

Airspy-Utils Airspy-Utils is a small software collection to help with firmware related operations on Airspy HF+ devices on Linux (and other free syste

Dhiru Kholia 11 Oct 4, 2022
osqueryIR is an artifact collection tool for Linux systems.
osqueryIR is an artifact collection tool for Linux systems.

osqueryIR osqueryIR is an artifact collection tool for Linux systems. It provides the following capabilities: Execute osquery SQL queries Collect file

AbdulRhman Alfaifi 7 Nov 2, 2022
PyResToolbox - A collection of Reservoir Engineering Utilities
PyResToolbox - A collection of Reservoir Engineering Utilities

pyrestoolbox A collection of Reservoir Engineering Utilities This set of functio

Mark W. Burgoyne 39 Oct 17, 2022
A Python utility belt containing simple tools, a stdlib like feel, and extra batteries. Hashing, Caching, Timing, Progress, and more made easy!
A Python utility belt containing simple tools, a stdlib like feel, and extra batteries. Hashing, Caching, Timing, Progress, and more made easy!

Ubelt is a small library of robust, tested, documented, and simple functions that extend the Python standard library. It has a flat API that all behav

Jon Crall 638 Dec 13, 2022
Obsidian tools - a Python package for analysing an Obsidian.md vault

obsidiantools is a Python package for getting structured metadata about your Obsidian.md notes and analysing your vault.

Mark Farragher 153 Jan 4, 2023
PyGMT - A Python interface for the Generic Mapping Tools
PyGMT - A Python interface for the Generic Mapping Tools

PyGMT A Python interface for the Generic Mapping Tools Documentation (development version) | Contact | Try Online Why PyGMT? A beautiful map is worth

The Generic Mapping Tools (GMT) 564 Dec 28, 2022
This is Cool Utility tools that you can use in python.

This is Cool Utility tools that you can use in python. There are a few tools that you might find very useful, you can use this on pretty much any project and some utils might help you a lot and save so much time since it’s a simple function.

Senarc Studios 6 Apr 18, 2022
Helper script to bootstrap a Python environment with the tools required to build and install packages.

python-bootstrap Helper script to bootstrap a Python environment with the tools required to build and install packages. Usage $ python -m bootstrap.bu

Filipe Laíns 7 Oct 6, 2022
Releases(v0.3.9)
Owner
Tyler Dougan
Tyler Dougan
GitHub Repository https://waltlabtools.readthedocs.io
Color getter (including method to get random color or complementary color) made out of Python

python-color-getter Color getter (including method to get random color or complementary color) made out of Python Setup pip3 install git+https://githu

Jung Gyu Yoon 2 Sep 17, 2022
Course-parsing - Parsing Course Info for NIT Kurukshetra

Parsing Course Info for NIT Kurukshetra Overview This repository houses code for

Saksham Mittal 3 Feb 03, 2022
Toolkit for collecting and applying templates of prompting instances

PromptSource Toolkit for collecting and applying templates of prompting instances. WIP Setup Download the repo Navigate to root directory of the repo

BigScience Workshop 1k Jan 05, 2023
Fuzzy box is a quick program I wrote to fuzz a URL that is in the format https:// url 20characterstring.

What is this? Fuzzy box is a quick program I wrote to fuzz a URL that is in the format https://url/20characterstring.extension. I have redacted th

Graham Helton 1 Oct 19, 2021
A multipurpose python module

pysherlock pysherlock is a Python library for dealing with web scraping using images, it's a Python application of the rendertron headless browser API

Sachit 2 Nov 11, 2021
Script for generating Hearthstone card spoilers & checklists

This is a script for generating text spoilers and set checklists for Hearthstone. Installation & Running Python 3.6 or higher is required. Copy/clone

John T. Wodder II 1 Oct 11, 2022
Gradually automate your procedures, one step at a time

Gradualist Gradually automate your procedures, one step at a time Inspired by https://blog.danslimmon.com/2019/07/15/ Features Main Features Converts

Ross Jacobs 8 Jul 24, 2022
Manage your exceptions in Python like a PRO

A linter to manage all your python exceptions and try/except blocks (limited only for those who like dinosaurs).

Guilherme Latrova 353 Dec 31, 2022
A Tool that provides automatic kerning for ligature based OpenType fonts in Microsoft Volt

Kerning A Tool that provides automatic kerning for ligature based OpenType fonts in Microsoft Volt There are three stages of the algorithm. The first

Sayed Zeeshan Asghar 6 Aug 01, 2022
A Python class for checking the status of an enabled Minecraft server

mcstatus provides an easy way to query Minecraft servers for any information they can expose. It provides three modes of access (query, status and ping), the differences of which are listed below in

Nathan Adams 1.1k Jan 06, 2023
Generate random german words

Generate random german words / Generiere zufällige deutsche Wörter Getting Started Pip install with pip install zufallsworte Install the library with

Maximilian Freitag 5 Mar 24, 2022
This is discord nitro code generator and checker made with python. This will generate nitro codes and checks if the code is valid or not. If code is valid then it will print the code leaving 2 lines and if not then it will print '*'.

Discord Nitro Generator And Checker ⚙️ Rᴜɴ Oɴ Rᴇᴘʟɪᴛ 🛠️ Lᴀɴɢᴜᴀɢᴇs Aɴᴅ Tᴏᴏʟs If you are taking code from this repository without a fork, then atleast

Vɪɴᴀʏᴀᴋ Pᴀɴᴅᴇʏ 37 Jan 07, 2023
MicroMIUI - Script to optimize miui and not only

MicroMIUI - Script to optimize miui and not only

Groiznyi-Studio 1 Nov 02, 2021
The Black shade analyser and comparison tool.

diff-shades The Black shade analyser and comparison tool. AKA Richard's personal take at a better black-primer (by stealing ideas from mypy-primer) :p

Richard Si 10 Apr 29, 2022
'ToolBurnt' A Set Of Tools In One Place =}

'ToolBurnt' A Set Of Tools In One Place =}

MasterBurnt 5 Sep 10, 2022
Early version for manipulate Geo localization data trough API REST.

Backend para obtener los datos (beta) Descripción El servidor está diseñado para recibir y almacenar datos enviados en forma de JSON por una aplicació

Víctor Omar Vento Hernández 1 Nov 14, 2021
API for obtaining results from the Beery-Bukenica test of the visomotor integration development (VMI) 4th edition.

VMI API API for obtaining results from the Beery-Bukenica test of the visomotor integration development (VMI) 4th edition. Install docker-compose up -

Victor Vargas Sandoval 1 Oct 26, 2021
Daiho Tool is a Script Gathering for Windows/Linux systems written in Python.

Daiho is a Script Developed with Python3. It gathers a total of 22 Discord tools (including a RAT, a Raid Tool, a Nuker Tool, a Token Grabberr, etc). It has a pleasant and intuitive interface to faci

AstraaDev 32 Jan 05, 2023
ticktock is a minimalist library to view Python time performance of Python code.

ticktock is a minimalist library to view Python time performance of Python code.

Victor Benichoux 30 Sep 28, 2022
A morse code encoder and decoder utility.

morsedecode A morse code encoder and decoder utility. Installation Install it via pip: pip install morsedecode Alternatively, you can use pipx to run

Tushar Sadhwani 2 Dec 25, 2021