RNAlien statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Unclassified tools chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

RNAlien specifications

Information


Unique identifier OMICS_13442
Name RNAlien
Interface Web user interface
Restrictions to use None
Input data A single protein sequence
Input format FASTA
Output data Evaluation results for the constructed covariance model, stockholm alignment, taxonomnic tree of the organsims
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Florian Eggenhofer <>

Information


Unique identifier OMICS_13442
Name RNAlien
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A single protein sequence
Input format FASTA
Output data Summary for construction process, tool versions, iteration info, evaluation results, Result covariance model, Result stockholm alignment, Result fasta, contains RNAz and cmstat output for result-files, contains non-iteration specific log files, iteration directories
Output format FASTA, CSV
Operating system Unix/Linux, Mac OS, Windows
Programming languages Haskell
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.1.1
Stability Stable
Requirements
inference of RNA alignments, RNAcode, Locarna, RNAz, ViennaRNA
Maintained Yes

Download


Versioning


Add your version

Maintainer


  • person_outline Florian Eggenhofer <>

Publication for RNAlien

RNAlien in publications

 (2)
PMCID: 5913331
PMID: 29719549
DOI: 10.3389/fgene.2018.00124

[…] identity filtering and a graph-based clustering method that utilizes rna secondary structure information. we tested the specificity, sensitivity and runtime of glassgo, blast and the combination rnalien/cmsearch in a typical use case scenario on 40 bacterial srna families. the sensitivity of the tested methods was similar, while the specificity of glassgo and rnalien/cmsearch […]

PMCID: 5075926
PMID: 27822460
DOI: 10.3389/fcimb.2016.00136

[…] snornas, i.e., snr72, snr74, and snr4 were found by specifically looking at conserved intronic regions in exophiala dermatitidis and subsequently by searching for homologous sequences in fungi with rnalien (eggenhofer et al., ) (see figures 3a,b)., the current transcript annotation of exophiala dermatitidis was updated by using rna-seq data from the skin and skin-control experiments (see […]


To access a full list of publications, you will need to upgrade to our premium service.

RNAlien institution(s)
Institute for Theoretical Chemistry, University of Vienna, Vienna, Austria; Bioinformatics Group, Department of Computer Science University of Freiburg, Georges-Kohler-Allee, Freiburg, Germany; Research Group Bioinformatics and Computational Biology, Faculty of Computer Science, University of Vienna, Vienna, Austria; Bioinformatics Group, Department of Computer Science, University of Leipzig, Leipzig, Germany; Interdisciplinary Center for Bioinformatics, University of Leipzig, Leipzig, Germany
RNAlien funding source(s)
This work was supported by Austrian Fonds zur Forderung der wissenschaftlichen Forschung; project Doktoratskolleg RNA Biology [W1207-B09]; project ‘SFB F43 RNA regulation of the transcriptome’; Swiss National Science Foundation [project CRSII3 154471/1]; Deutsche Forschungsgemeinschaft [BA 2168/4-3 SPP 1395 InKoMBio].

RNAlien reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review RNAlien