Evidence map›Paper›PMID 41066085›Full record

ArticleJournal of computational biology : a journal of computational molecular cell biology2026

mcRigor: A Statistical Software Package for Evaluating and Optimizing Metacell Partitioning in Single-Cell Data Analysis.

Pan Liu, Jingyi Jessica Li

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Journal of computational biology : a journal of computational molecular cell biology, 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

2 authors.

Pan LiuDepartment of Statistics and Data Science, University of California, Los Angeles, California, USA.
Jingyi Jessica LiDepartment of Statistics and Data Science, University of California, Los Angeles, California, USA.ORCID 0000-0002-9288-5648

Funding

Technology Development Coordinating CenterU24HG011735 · NHGRI · JACKSON LABORATORY · PI Mark D ADAMS · 2021 to 2026
$8.1M
Statistical Methods for Elucidating Regulatory Mechanisms and Functional Impacts of Transcriptome Variation at Population and Single-Cell ScalesR35GM140888 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI LI, JINGYI JESSICA · 2021 to 2025
$2.0M
Robust Identification and accurate quantification of RNA transcripts on a system wide scaleR01GM120507 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI LI, JINGYI JESSICA · 2016 to 2021
$1.7M
NHGRI NIH HHS U24 HG011735NIGMS NIH HHS R01 GM120507NIGMS NIH HHS R35 GM140888
6 · The paper itself

Abstract

Metacell partitioning is a common preprocessing step in single-cell data analysis, used to reduce sparsity by aggregating similar cells. However, existing metacell partitioning algorithms may inadvertently group heterogeneous cells, potentially biasing downstream analyses. The resulting metacell partitions can vary substantially with different hyperparameter settings, leaving users uncertain about which result to trust. The mcRigor R package offers a statistical method for evaluating and optimizing metacell partitioning in single-cell data analysis. This article provides instructions for installing and using mcRigor to support more rigorous and interpretable metacell-based workflows.

Indexed as

Computational BiologySingle-Cell AnalysisSoftwareAlgorithmsHumanshyperparameter optimizationmetacell partitioningsingle-cell sequencing

Identifiers

PMID41066085
PMCPMC12872216

What OpenQuestion holds

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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.