Evidence map›Paper›PMID 40971807›Full record

ArticleBioinformatics (Oxford, England)2025

CompareM2 is a genomes-to-report pipeline for comparing microbial genomes.

Carl M Kobel, Velma T E Aho, Ove Øyås, Niels Nørskov-Lauritsen, Ben J Woodcroft, Phillip B Pope

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Bioinformatics (Oxford, England), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. Article
  2. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Carl M KobelFaculty of Biosciences, Norwegian University of Life Sciences, Ås, Norway.
Velma T E AhoFaculty of Biosciences, Norwegian University of Life Sciences, Ås, Norway.
Ove ØyåsFaculty of Biosciences, Norwegian University of Life Sciences, Ås, Norway.
Niels Nørskov-LauritsenClinical Institute, University of Southern Denmark, Odense, Denmark.
Ben J WoodcroftCentre for Microbiome Research, School of Biomedical Sciences, Queensland University of Technology (QUT), Translational Research Institute, Woolloongabba, Australia.
Phillip B PopeFaculty of Biosciences, Norwegian University of Life Sciences, Ås, Norway.ORCID 0000-0002-2067-4059

Funding

Australian Research Council FT230100560European Union's Horizon 2020 Research and Innovation programme 101000213The Novo Nordisk Foundation 0054575-SuPAcow
6 · The paper itself

Abstract

summaryHere, we present CompareM2, a genomes-to-report pipeline for comparative analysis of bacterial and archaeal genomes derived from isolates and metagenomic assemblies. CompareM2 is easy to install and operate, designed in such a way that the user can install the complete software in one step and launch all analyses on a set of microbial genomes (bacterial and archaeal) in a single action. The central results generated via the CompareM2 workflow are emphasized in a portable dynamic report document. AVAILABILITY AND IMPLEMENTATION: CompareM2 is a free software that is scalable to a range of project sizes, and welcomes modifications and pull requests from the community on its Git repository at https://github.com/cmkobel/comparem2.

Indexed as

Genome, ArchaealGenome, BacterialGenome, MicrobialSoftwareArchaeaBacteriaMetagenomics

Identifiers

PMID40971807
PMCPMC12466929

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.