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Citations per year

Number of citations per year for the bioinformatics software tool MetaGen

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MetaGen specifications


Unique identifier OMICS_22084
Name MetaGen
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C++, R, Shell (Bash)
License BSD 2-clause “Simplified” License
Computer skills Advanced
Version 1.1.0
Stability Stable
Ray Assembler or MegaHIT Assembler, Bowtie2, Samtools, Repp, MASS, mixtools, doParallel, foreach, seqinr, getopt
Maintained Yes


No version available


  • person_outline Wenxuan Zhong

Publication for MetaGen

MetaGen citations


Identifying Group Specific Sequences for Microbial Communities Using Long k mer Sequence Signatures

Front Microbiol
PMCID: 5943621
PMID: 29774017
DOI: 10.3389/fmicb.2018.00872

[…] bial community studies.Besides genes or species, assembled contigs have also been used as features to predict disease. Several contig binning tools, such as CONCOCT (), MaxBin2.0 (), COCACOLA (), and MetaGen (), were developed for binning contigs assuming that contigs with similar coverage/relative abundances over different samples come from the same genomes. In particular, although the main purpo […]


Relationship between salivary/pancreatic amylase and body mass index: a systems biology approach

PMCID: 5322607
PMID: 28228143
DOI: 10.1186/s12916-017-0784-x

[…] mber was assessed by a logistic regression model adjusted for age and sex in the two case-control studies. The combined analysis was performed using a weighted inverse normal method via the function “metagen”, with a fixed effect, in the “META” R package. No heterogeneity was observed for this combined analysis (P = 0.14).All genetic analyses were performed under an additive model. All statistical […]


The efficacy and safety of S 1 based regimens in the first line treatment of advanced gastric cancer: a systematic review and meta analysis

PMCID: 4906062
PMID: 26754295
DOI: 10.1007/s10120-015-0587-8

[…] Pairwise meta-analyses using random-effect models were conducted with the Metagen R package [] and Review Manager 5.3. For OS and PFS outcomes, hazard ratios (HRs) and 95 % confidence intervals (CIs) were extracted by the method described by Tierney et al. []. An HR less th […]


Genome Wide Meta analysis Highlights the Role of Genetic Variation in RARRES2 in the Regulation of Circulating Serum Chemerin

PLoS Genet
PMCID: 4270463
PMID: 25521368
DOI: 10.1371/journal.pgen.1004854
call_split See protocol

[…] le studies were corrected for inflation (Sorbs cohort: λ = 1.014, KORA: λ = 0.99, PPP: λ = 0.99). Standardized effects of single studies were combined using fixed and random effects models (function “metagen” of the “meta” package of R). Heterogeneity between studies was assessed by Q-statistics. […]


What Is the Contribution of Two Genetic Variants Regulating VEGF Levels to Type 2 Diabetes Risk and to Microvascular Complications?

PLoS One
PMCID: 3566098
PMID: 23405237
DOI: 10.1371/journal.pone.0055921

[…] sion model adjusted for age and gender (T2D) or for T2D duration and gender (retinopathy and nephropathy).The combined analyses were performed using a weighted inverse normal method via the function “metagen”, with a fixed effect, in the “META” R package. No heterogeneity was observed (P>0.1).All statistical analyses were performed using SPSS (version 14.0 for Windows), except combined analyses an […]


Short term and intermediate term comparison of endarterectomy versus stenting for carotid artery stenosis: systematic review and meta analysis of randomised controlled clinical trials

PMCID: 2821470
PMID: 20154049
DOI: 10.1136/bmj.c467
call_split See protocol

[…] ed studies sequentially according to the date of publication. To account for varying time to event for intermediate term follow-up, we used hazard ratios of time to events (R package “meta,” function metagen). This approach accounts for differential follow-up intervals and patients who were lost to follow-up. All analyses were done on an intention to treat basis. When an event did not occur in one […]

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MetaGen institution(s)
Department of Statistics, University of Georgia, Athens, GA, USA; Department of Statistics, Harvard University, Cambridge, MA, USA; Center for Statistical Science & Department of Industry Entering, Beijing, China
MetaGen funding source(s)
Supported in part by the National Institutes of Health (grant R01 GM113242-01); and the National Science Foundation (grants DMS-1440038 and DMS-1440037).

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