Evidence map›Paper›PMID 37490627›Full record

ArticleThe Journal of chemical physics2023

mmodel: A workflow framework to accelerate the development of experimental simulations.

Peter Sun, John A Marohn

Abstract read
In one paragraph

Article in The Journal of chemical physics, 2023. 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

2 authors.

Peter SunDepartment of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, USA.ORCID 0000-0002-5241-100X
John A MarohnDepartment of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, USA.ORCID 0000-0003-2364-0847

Funding

Single molecule localization microscopy via angstrom-scale three-dimensional imaging of electron spin labelsR01GM143556 · NIGMS · CORNELL UNIVERSITY · PI MAROHN, JOHN A · 2021 to 2024
$1.2M
NIGMS NIH HHS R01 GM143556
6 · The paper itself

Abstract

Simulation has become an essential component of designing and developing scientific experiments. The conventional procedural approach to coding simulations of complex experiments is often error-prone, hard to interpret, and inflexible, making it hard to incorporate changes such as algorithm updates, experimental protocol modifications, and looping over experimental parameters. We present mmodel, a Python framework designed to accelerate the writing of experimental simulation packages. mmodel uses a graph-theory approach to represent the experiment steps and can rewrite its own code to implement modifications, such as adding a loop to vary simulation parameters systematically. The framework aims to avoid duplication of effort, increase code readability and testability, and decrease development time.

Identifiers

PMID37490627
PMCPMC10375467

What OpenQuestion holds

Textmetadata
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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.