PyHRMS: Tools For working with High Resolution Mass Spectrometry (HRMS) data in Environmental Science

PyHRMS is a python package for processing high resolution Mass Spectrometry data coupled with gas chromatogram (GC) or liquid chromatogram (LC).

It aims to provide user friendly tool to read, process and visualize LC/GC-HRMS data for scientist.

Contributers: Rui Wang

Release date: Nov.15.2021

Update

Dec.13.2021: pyhrms 0.1.7 new features:

  • add ms2 match function

  • modified sep_scans function

  • add extract2 to directly extract chromatogram from ms list

Installation & major dependencies pyhrms can be installed and import as following:

` pip install pyhrms `

pyhrms requires major dependencies:

  • numpy>=1.19.2

  • pandas>1.3.3

  • matplotlib>=3.3.2

  • pymzml>=2.4.7

  • scipy>=1.6.2

  • numba>=0.53.1

  • molmass>=2021.6.18

  • tqdm >= 4.62.3

Features

PyHRMS provides following functions:

  • Read raw LC/GC-HRMS data in mzML format;

  • Powerful and accurate peak picking function for LC/GC HRMS;

  • retention time (rt) and mass over Z stands for charge number of ions (m/z) will be aligned based on user defined error range.

  • Accurate function for comparing response between/among two or more samples;

  • Covert profile data to centroid

  • Parallel computing to improve efficiency;

  • Interactive visualizations of raw mzML data;

  • Supporting searching for Local database and massbank;

  • MS quality evaluation for ms data in profile.

Licensing

The package is open source and can be utilized under MIT license. Please find the detail in licence file.

Project links

Key dates

PyPI data
Data sourced directly from PyPI's database.
  • Released:
Newer release available (1.0.9)

1 maintainer

PyPI data
Data sourced directly from PyPI's database.
Avatar for wangrui from gravatar.com wangrui

Credits

Author: Wang Rui

License

MIT License

Requires

Python >=3.6

Classifiers

Report project as malware

Download files

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

Source Distribution

pyhrms-0.1.7.zip (18.4 kB view details)

Uploaded Source

Built Distribution

If you're not sure about the file name format, learn more about wheel file names.

pyhrms-0.1.7-py3-none-any.whl (15.7 kB view details)

Uploaded Python 3

File details

Details for the file pyhrms-0.1.7.zip.

File metadata

  • Download URL: pyhrms-0.1.7.zip
  • Upload date:
  • Size: 18.4 kB
  • Tags: Source
  • Uploaded using Trusted Publishing? No
  • Uploaded via: twine/3.7.1 importlib_metadata/4.8.2 pkginfo/1.8.2 requests/2.24.0 requests-toolbelt/0.9.1 tqdm/4.50.2 CPython/3.7.10

File hashes

Hashes for pyhrms-0.1.7.zip
Algorithm Hash digest
SHA256 e49413fb107338991b11724c6bd28a0460b5d74ee7f3a44310f63deed0c21c15
MD5 1193c80ef807a691720bcb742f58e7f9
BLAKE2b-256 6f162cff2bfc42d4f20e47604e6598f828dc7a1a29200870e701ec34d6019737

See more details on using hashes here.

File details

Details for the file pyhrms-0.1.7-py3-none-any.whl.

File metadata

  • Download URL: pyhrms-0.1.7-py3-none-any.whl
  • Upload date:
  • Size: 15.7 kB
  • Tags: Python 3
  • Uploaded using Trusted Publishing? No
  • Uploaded via: twine/3.7.1 importlib_metadata/4.8.2 pkginfo/1.8.2 requests/2.24.0 requests-toolbelt/0.9.1 tqdm/4.50.2 CPython/3.7.10

File hashes

Hashes for pyhrms-0.1.7-py3-none-any.whl
Algorithm Hash digest
SHA256 afd900228fd0d8e31d5aada53332da72dc6abd19bace17686e485b08c280925a
MD5 2ed982b99ce7b903d77b91bc2efbcd98
BLAKE2b-256 af02240cff242a44e7330715c8aaeade6ffb67a1a85b3519245833c8705a6ad9

See more details on using hashes here.

Release history Release notifications | RSS feed

1.0.9

1 file

1.0.8

1 file

1.0.7

1 file

1.0.6

1 file

1.0.5

1 file

1.0.4

1 file

1.0.3

1 file

1.0.2

1 file

1.0.1

1 file

1.0.0

2 files

0.9.9

2 files

0.9.8

2 files

0.9.7

2 files

0.9.6

2 files

0.9.5

2 files

0.9.4

2 files

0.9.3

2 files

0.9.2

2 files

0.9.1

2 files

0.9.0

2 files

0.8.9

2 files

0.8.8

2 files

0.8.7

2 files

0.8.6

2 files

0.8.5

2 files

0.8.4

2 files

0.8.3

2 files

0.8.2

2 files

0.8.1

2 files

0.8.0

2 files

0.7.9

2 files

0.7.8

2 files

0.7.7

2 files

0.7.6

2 files

0.7.5

2 files

0.7.4

2 files

0.7.3

2 files

0.7.2

2 files

0.7.1

2 files

0.7.0

2 files

0.6.9

2 files

0.6.8

2 files

0.6.7

2 files

0.6.6

2 files

0.6.5

2 files

0.6.4

2 files

0.6.3

2 files

0.6.2

2 files

0.6.1

2 files

0.6.0

2 files

0.5.9

2 files

0.5.8

2 files

0.5.7

2 files

0.5.6

2 files

0.5.5

2 files

0.5.4

2 files

0.5.3

1 file

0.5.2

2 files

0.5.1

2 files

0.4.0

2 files

0.3.9

2 files

0.3.8

2 files

0.3.7

2 files

0.3.6

2 files

0.3.5

2 files

0.3.4

2 files

0.3.3

2 files

0.3.2

2 files

0.3.1

1 file

0.2.10

2 files

0.2.9

2 files

0.2.7

2 files

0.2.6

2 files

0.2.5

2 files

0.2.4

2 files

0.2.3

2 files

0.2.2

2 files

0.2.1

2 files

0.2.0

2 files

0.1.9

2 files

0.1.8

2 files

This release

0.1.7 This release

2 files

0.1.6

2 files

0.1.5

2 files

0.1.4

2 files

0.1.3

2 files

0.1.2

2 files

0.1.1

2 files

0.1.0

2 files

Anthropic, PBC Visionary sponsor Bloomberg Visionary sponsor Hudson River Trading Visionary sponsor Meta Visionary sponsor NVIDIA Visionary sponsor Microsoft Sustainability sponsor Depot Continuous Integration AWS Cloud computing and Security Sponsor Datadog Monitoring Fastly CDN Google Download Analytics Sentry Error logging StatusPage Status page