Evidence map›Paper›PMID 42003641›Full record

ArticleMicrobiology resource announcements2026

camlhmp: a simple framework for building reproducible microbial genome-based typing tools.

Robert A Petit, Chayse M Rowley, Taylor R Fearing, Stefaan Verwimp, Rob G Christensen, Jim A Mildenberger, Joseph M Reed, Timothy D Read

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Microbiology resource announcements, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing 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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

8 authors.

Robert A PetitWyoming Public Health Laboratory, Wyoming Department of Health, Cheyenne, Wyoming, USA.ORCID 0000-0002-1350-9426
Chayse M RowleyWyoming Public Health Laboratory, Wyoming Department of Health, Cheyenne, Wyoming, USA.
Taylor R FearingWyoming Public Health Laboratory, Wyoming Department of Health, Cheyenne, Wyoming, USA.
Stefaan VerwimpComputational Systems Biology, Department of Microbial and Molecular Systems, KU Leuven, Leuven, Flanders, Belgium.
Rob G ChristensenWyoming Public Health Laboratory, Wyoming Department of Health, Cheyenne, Wyoming, USA.
Jim A MildenbergerWyoming Public Health Laboratory, Wyoming Department of Health, Cheyenne, Wyoming, USA.
Joseph M ReedWyoming Public Health Laboratory, Wyoming Department of Health, Cheyenne, Wyoming, USA.
Timothy D ReadCenter of Applied Pathogen Epidemiology and Outbreak Response, Georgia PGCoE, Atlanta, Georgia, USA.ORCID 0000-0001-8966-9680

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Sequence-based typing is critical for microbial genomics, yet existing tools are often developed in isolation, leading to duplicated effort, inconsistent formats, and limited community participation. To address this, we developed camlhmp (https://github.com/rpetit3/camlhmp), a framework for creating, executing, and maintaining typing tools with simple, human-readable YAML files.

Indexed as

bioinformaticsmicrobial genomicssequence-based typingsoftware

Identifiers

PMID42003641
PMCPMC13151711

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.