Metastats protocols

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Metastats specifications

Information


Unique identifier OMICS_07814
Name Metastats
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline James Robert White <>

Publication for Metastats

Metastats in pipelines

 (18)
2018
PMCID: 5827717
PMID: 29503707
DOI: 10.1080/20002297.2018.1442986

[…] quantitative insights into microbial ecology pipeline software package version 1.9.1 [] was used for down-stream analyses, including alpha and beta diversities. a statistical method introduced in metastats (http://cbcb.umd.edu/software/metastats) was used to reveal significant differences between the microbiota of control saliva and aps-1 saliva. this method employs a false discovery rate […]

2017
PMCID: 5589179
PMID: 28880897
DOI: 10.1371/journal.pone.0184223

[…] the means of three replicates for soil management treatments. data on the differences in fungal and bacterial community compositions among the four management treatments was were obtained with the metastats [] command of the mothur software (version 1.31.2) and p values of < 0.05 were considered significant. to test for significant differences in soil community compositions among […]

2017
PMCID: 5648123
PMID: 29049378
DOI: 10.1371/journal.pone.0184955

[…] were excluded., statistical tests for differentially abundant features (e.g., microbial taxa, functional profiles, and genome coverage) on the basis of normalized count data were performed using metastats []. metastats utilizes a non-parametric t-test [] and separately employs a fisher’s exact test for rare features, performing well for comparing metagenomics sequencing data. the p values […]

2017
PMCID: 5716533
PMID: 29206846
DOI: 10.1371/journal.pone.0188919

[…] structural composition in different taxonomic levels was displayed. the inter-individual variation on the microbiome between three individuals of lamprey was tested using mothur software through metastats (http://metastats.cbcb.umd.edu/) analysis []. top20 of bacteria in genus level and top 7 of bacteria in phylum level with significant differences (p < 0.05) among three individuals […]

2016
PMCID: 4709690
PMID: 26754178
DOI: 10.1038/srep19189

[…] measured using shannon’s diversity as implemented in mothur. differences in abundance of otus between mice grouped by cftr genotype and treatment were determined by the mothur implementation of the metastats program with p < 0.05 taken as the level of significance., how to cite this article: bazett, m. et al. streptomycin treatment alters the intestinal microbiome, pulmonary t cell profile […]


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Metastats in publications

 (198)
PMCID: 5952520
PMID: 29764472
DOI: 10.1186/s13071-018-2880-y

[…] to identify which features (i.e. species) are differentially abundant between two populations, beta diversity estimations between populations on a species and genera basis were accomplished with the metastats plugin in mothur v. 1.36.1, using 1000 permutations and default parameters []. as metastats assumes the non-normal distribution of data, it runs a modified nonparametric t-test to assign […]

PMCID: 5928145
PMID: 29740382
DOI: 10.3389/fneur.2018.00218

[…] values in the wt controls., all the data are presented as the means ± sem. the comparisons of the relative abundances of microflora were analyzed using the differentially abundant features program (metastats, http://metastats.cbcb.umd.edu). a one-way of analysis of variance followed by bonferroni’s post hoc test for multiple comparisons was used to analyze mn survival and glial activation. […]

PMCID: 5908915
PMID: 29674641
DOI: 10.1038/s41598-018-24573-y

[…] hypothesis testing was performed to test whether the differential clustering of the pbs samples in the dendrograms was significant. differences in the 30 most abundant otus were assessed using the metastats command in mothur and p-values for differences in individual otus were corrected for multiple comparisons using bonferroni correction. values of p < 0.05 were considered statistically […]

PMCID: 5924556
PMID: 29659545
DOI: 10.3390/genes9040214

[…] from the ncbi until december 2017 at the one codex data platform (https://app.onecodex.com/references)., wilcoxon rank-sum test was used to examine the significance of alpha diversity indices. metastats [], described in detail in our previous studies [,], was used to obtain the relative abundance differences of microbial communities between groups (groups = 2, samples per group ≥ 3). […]

PMCID: 5879832
PMID: 29609542
DOI: 10.1186/s12866-018-1171-2

[…] in “vegan”. similarity percentage (simper) procedure implemented in “vegan” was used to quantify the contribution of individual otus to the overall bray-curtis dissimilarity between the groups. “metastats” [] was used to test for otus and orders with statistically significant differential abundances between the exposure groups. only otus containing more than 0.1% of the total number of reads […]


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Metastats institution(s)
Department of Computer Science, Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA

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