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EagleView specifications

Information


Unique identifier OMICS_00882
Name EagleView
Software type Package/Module
Interface Graphical user interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++
Computer skills Medium
Version 2.2
Stability Stable
Maintained No

Versioning


No version available

Maintainer


This tool is not available anymore.

Publication for EagleView

EagleView citations

 (12)
library_books

The Staphylococcus aureus α Acetolactate Synthase ALS Confers Resistance to Nitrosative Stress

2017
Front Microbiol
PMCID: 5504149
PMID: 28744267
DOI: 10.3389/fmicb.2017.01273

[…] lly independent samples following the previously described procedures (). RNA samples were analyzed in an Ion ProtonTM Sequencer by the PrimBio company (Primbio Research Institute, Innovation Center, Eagleview, Philadelphia, PA, United States). The transcriptome was analyzed by high-resolution RNA-Seq, and the statistical and functional data analysis was done with the Webserver Pipeline T-Rex () a […]

library_books

Chromatin accessibility: a window into the genome

2014
PMCID: 4253006
PMID: 25473421
DOI: 10.1186/1756-8935-7-33

[…] on of insert sizes that depicts a five to six nucleosomal array along with ten bp periodicity of insert sizes.A number of publicly available stand-alone genome browser tools [], including Artemis [], EagleView [], MapView [], Tablet [], Savant [], and Apollo [], can be used to visualize raw tag density profiles (and enriched genomic regions, see below) in relation to available annotation tracks. T […]

library_books

Population Structure of Geosmithia morbida, the Causal Agent of Thousand Cankers Disease of Walnut Trees in the USA

2014
PLoS One
PMCID: 4231075
PMID: 25393300
DOI: 10.1371/journal.pone.0112847

[…] by using SeqMan Pro (Lasergene version 8.1.1; DNASTAR, Madison, WI, USA) yielding a total of 13,392 contigs and 21,737 singlets that were screened for the presence of microsatellite repeats by using EagleView software . Primers were designed from a subset of selected contigs based on: presence of microsatellite repeats; putative presence of polymorphism within a contig; location of repeats within […]

library_books

Semi Automatic In Silico Gap Closure Enabled De Novo Assembly of Two Dehalobacter Genomes from Metagenomic Data

2012
PLoS One
PMCID: 3528712
PMID: 23284863
DOI: 10.1371/journal.pone.0052038

[…] contigs (): a phenomenon we named “edge sequence suppression”. These traces can be revealed in the visualization of the assembly at the 5′ edge of contig00270 as shown in , which was generated using EagleView v.2.0 where the sequences that were suppressed are highlighted in red. For contig00270, there were 15 homogeneous reads suppressed, represented by the read labeled GJDNVXK01E3JVP (); these […]

library_books

Transposable Elements Are a Major Cause of Somatic Polymorphism in Vitis vinifera L.

2012
PLoS One
PMCID: 3299709
PMID: 22427919
DOI: 10.1371/journal.pone.0032973

[…] For all polymorphism calling, identification was first performed in silico and all polymorphic loci were then validated manually using EagleView . This manual validation was essential for the following reasons: i) the 454 method is known to create some false positives, particularly with homopolymer sequences ii) the parameters we use […]

library_books

Novel Tools for Conservation Genomics: Comparing Two High Throughput Approaches for SNP Discovery in the Transcriptome of the European Hake

2011
PLoS One
PMCID: 3222667
PMID: 22132191
DOI: 10.1371/journal.pone.0028008

[…] scored “no”. A flowchart for the intron-exon pipeline is depicted in .A final evaluation step of putative SNPs was performed by direct visual inspection of contigs using the assembly viewer software Eagleview and Cluster Viewer (clview; http://compbio.dfci.harvard.edu/tgi/software/), with the aim of ranking candidates within each contig by integrating information on the overall contig assembly q […]

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EagleView institution(s)
Department of Biology, Boston College, Chestnut Hill, MA, USA
EagleView funding source(s)
This research was supported by a grant to G.M. (no. R01 HG003698) from the National Human Genome Research Institute, National Institutes of Health.

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