PiMP statistics

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chevron_left Metabolic network analysis Metabolite identification Data integration Statistical analysis Quality control Spectral visualization chevron_right
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Protocols

PiMP specifications

Information


Unique identifier OMICS_20336
Name PiMP
Alternative name Polyomics integrated Metabolomics Pipeline
Software type Pipeline/Workflow
Interface Web user interface
Restrictions to use None
Input format MzXML
License GNU General Public License version 3.0
Computer skills Basic
Stability Stable
Registration required Yes
Maintained Yes

Maintainer


  • person_outline Karl Burgess

Additional information


http://polyomics.mvls.gla.ac.uk/userguide/

Information


Unique identifier OMICS_20336
Name PiMP
Alternative name Polyomics integrated Metabolomics Pipeline
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C++, Javascript, Python
Computer skills Advanced
Stability Stable
Requirements
Django
Maintained Yes

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Versioning


No version available

Maintainer


  • person_outline Karl Burgess

Additional information


http://polyomics.mvls.gla.ac.uk/userguide/

Publication for Polyomics integrated Metabolomics Pipeline

PiMP citations

 (3)
library_books

From correlation to causation: analysis of metabolomics data using systems biology approaches

2018
Metabolomics
PMCID: 5829120
PMID: 29503602
DOI: 10.1007/s11306-018-1335-y

[…] cent tool integrating automated analysis of mass spectrometry data and visualization of biological context by linking each metabolite to one or more biological pathways (see also next section) is the Polyomics integrated Metabolomics Pipeline (PiMP) (Gloaguen et al. ). This tool annotates metabolites identified in mass spectrometry experiments, providing direct access to the experimental features […]

call_split

Metabolomics Identifies Multiple Candidate Biomarkers to Diagnose and Stage Human African Trypanosomiasis

2016
PLoS Negl Trop Dis
PMCID: 5152828
PMID: 27941966
DOI: 10.1371/journal.pntd.0005140
call_split See protocol

[…] tification, minimum number of detections of three per group, a peak height intensity filter of 1000 and a relative standard deviation filter of 0.8). Data were exported from IDEOM to MetaboAnalyst [] PiMP (http://polyomics.mvls.gla.ac.uk/: PCA plots and TICs) and Graphpad Prism (histograms).Metabolite identification—Metabolic features in this manuscript are named according to their best match base […]

library_books

A Computational Solution to Automatically Map Metabolite Libraries in the Context of Genome Scale Metabolic Networks

2016
Front Mol Biosci
PMCID: 4754433
PMID: 26909353
DOI: 10.3389/fmolb.2016.00002

[…] and made available to GP users. This table currently contains almost 60 different metabolic networks. Currently, the mapping has to be launched manually in order to update the coverage table; however PiMP constantly provides an open access to the list of InChIs corresponding to Glasgow Polyomics standard compound library and automatically parses the result sent back by MetExplore to generate the n […]


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PiMP institution(s)
Glasgow Polyomics, University of Glasgow, Glasgow, Scotland; School of Computing Science, University of Glasgow, Glasgow, Scotland; Wellcome Trust Centre for Molecular Parasitology, University of Glasgow, Glasgow, Scotland; Centre for Cell Engineering, University of Glasgow, Glasgow, Scotland
PiMP funding source(s)
Supported by the Wellcome Trust grants 097821/Z/11/Z and 105614/Z/14/Z and by the BBSRC WestBio DTP - Grant Number BB/J013854/1.

PiMP review

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Joe Wandy

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I've been using PiMP for a while, and I highly recommend it for metabolomics data analysis.