Myrna statistics

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Citations per year

Number of citations per year for the bioinformatics software tool Myrna
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Tool usage distribution map

This map represents all the scientific publications referring to Myrna per scientific context
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Associated diseases

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Popular tool citations

chevron_left Read alignment Normalization Known transcript quantification Differential expression Bioinformatics workflows Differential abundant feature detection chevron_right
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Protocols

Myrna specifications

Information


Unique identifier OMICS_01310
Name Myrna
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Parallelization MapReduce
Computer skills Advanced
Version 1.2.3
Stability Stable
High performance computing Yes
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Jeffrey Leek

Publication for Myrna

Myrna citations

 (17)
library_books

Eleven quick tips for architecting biomedical informatics workflows with cloud computing

2018
PLoS Comput Biol
PMCID: 5875741
PMID: 29596416
DOI: 10.1371/journal.pcbi.1005994

[…] duces developer burden and provides a technologically advanced solution that need not be reinvented.An example of a cloud-based biomedical informatics workflow which benefits from managed services is Myrna, which is a pipeline for alignment of RNA-seq reads and investigation of differential transcript expression []. Myrna utilizes Elastic MapReduce (EMR), a managed Hadoop service offered by Amazon […]

library_books

Scalability and Validation of Big Data Bioinformatics Software

2017
Comput Struct Biotechnol J
PMCID: 5537105
PMID: 28794828
DOI: 10.1016/j.csbj.2017.07.002

[…] Aligner (BWA), and a Reduce step, which performs variant calling in a chromosomal region using Genome Analysis Toolkit (GATK). Other examples of MapReduce-based bioinformatics analysis tools include Myrna, which performs RNA-sequencing gene expression analysis and CloudAligner, a short-read sequence aligner.Fig. 2Fig. 2.One disadvantage of the MapReduce programming model is the need to decompose […]

library_books

Big Data Application in Biomedical Research and Health Care: A Literature Review

2016
PMCID: 4720168
PMID: 26843812
DOI: 10.4137/BII.S31559

[…] h reduces barriers and improves the efficiency of running GWAS analyses on clustered machines. On a 40-node cluster, BlueSNP analyzed 1,000 phenotypes on 106 SNPs in 104 individuals within 34 minutes.Myrna is a cloud-based computing pipeline that calculates the differences of gene expression in large RNA-seq datasets. RNA-seq data are m-sequencing reads derived from mRNA molecules. Myrna supports […]

library_books

Transcriptomes analysis of Aeromonas molluscorum Av27 cells exposed to tributyltin (TBT): Unravelling the effects from the molecular level to the organism

2015
PMCID: 4541717
PMID: 26171931
DOI: 10.1016/j.marenvres.2015.06.017

[…] the reads; 454 Newbler Mapping 2.6 was used in the mapping process. These steps allowed the quantification of the number of reads that mapped in the references formed by the contigs. The application MyRNA () was applied to obtain statistical evidence of the differential protein expression levels.Sequencing raw data can be downloaded from Sequence Read Archive (SRA) through the BioProject PRJNA182 […]

call_split

Getting the most out of RNA seq data analysis

2015
PeerJ
PMCID: 4631466
PMID: 26539333
DOI: 10.7717/peerj.1360
call_split See protocol

[…] identified two suitable RNA-seq data sets in the Recount database (). The latter contains unnormalized RNA-seq count data sets from 18 major studies that have been assembled from raw reads using the Myrna () pipeline.The Bottomly data set () consists of gene expression data (22 million Illumina reads per sample, read length of ∼30 bases) obtained from the brain striatum tissues of two mice strain […]

library_books

Comparative transcriptomic analysis of male and female flowers of monoecious Quercus suber

2014
Front Plant Sci
PMCID: 4222140
PMID: 25414713
DOI: 10.3389/fpls.2014.00599

[…] om different samples and a contingency table with contig names was created using the number of reads per reference contig per sample. The contingency table was normalized at a 95 percentile using the MyRNA (Langmead et al., ) statistical analysis package and the differential gene expression was evaluated using a linear regression model based on a Gaussian distribution and taking into account only […]


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Myrna institution(s)
Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA

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