Skip to main content

pIMZ: an integrative framework for imaging mass spectrometry analysis

Project description

pIMZ: an integrative framework for imaging mass spectrometry analysis

Documentation Status Build Status PyPI GitHub All Releases PyPI - Python Version PyPI - License DOI

Description

pIMZ is a framework for Imaging Mass Spectrometry (IMS) data analysis. The python implementation is available from github.com/mjoppich/pIMZ. For installation follow the instructions given here.

pIMZ focuses on a differential setting, where masses, specific to certain areas are first determined, and then serve as input for a cell-type detection framework and/or a differential expression setting.

pIMZ's documentation is available here: Documentation Status .

Installation

The easiest way to install most Python packages is via pip.

If not already done, you must first install the following dependencies manually. This is because at the time of writing this document, dabest requires pandas~=0.25, which is incompatible with probably the rest of the world nowadays. So first dabest is installed, then numpy and pandas are upgraded again ::

sudo pip3 install dabest
sudo pip3 install numpy pandas --upgrade

Only then we should install pIMZ :: sudo pip3 install pIMZ

pIMZ is now ready to go!

Usage

References to examples and example notebooks can be found in the examples folder, or in the documentation.

All available classes and their functions are explained in the modules/API documentation.

Project details


Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

pIMZ-1.0a0.tar.gz (410.8 kB view details)

Uploaded Source

File details

Details for the file pIMZ-1.0a0.tar.gz.

File metadata

  • Download URL: pIMZ-1.0a0.tar.gz
  • Upload date:
  • Size: 410.8 kB
  • Tags: Source
  • Uploaded using Trusted Publishing? No
  • Uploaded via: twine/3.2.0 pkginfo/1.5.0.1 requests/2.22.0 setuptools/45.2.0 requests-toolbelt/0.9.1 tqdm/4.47.0 CPython/3.8.2

File hashes

Hashes for pIMZ-1.0a0.tar.gz
Algorithm Hash digest
SHA256 7367d1009fa2f5fcfe1c8da82935a139a91befd230fdecac15c4205364e4f83a
MD5 7c350a00b283efe7f0d0a00fafa89971
BLAKE2b-256 6741b247387dcc3b61b517fdb7656a0958b5001a3fdca7579da363f3e90a9bf0

See more details on using hashes here.

Supported by

AWS Cloud computing and Security Sponsor Datadog Monitoring Fastly CDN Google Download Analytics Pingdom Monitoring Sentry Error logging StatusPage Status page