RNA CoMPASS protocols

View RNA CoMPASS computational protocol

RNA CoMPASS 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 Read alignment Differential expression Known transcript quantification Spliced read alignment Normalization Gene expression visualization Bioinformatics workflows chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

RNA CoMPASS specifications

Information


Unique identifier OMICS_01410
Name RNA CoMPASS
Alternative name RNA Comprehensive Multi-Processor Analysis System for Sequencing
Software type Pipeline/Workflow
Interface Graphical user interface
Restrictions to use None
Input format FASTQ
Operating system Unix/Linux, Mac OS, Windows
License GNU General Public License version 2.0
Computer skills Medium
Version 1.1
Stability Stable
Requirements
Novoalign, SAMMate, BALST, MEGAN
Maintained Yes

Versioning


Add your version

Documentation


Maintainers


  • person_outline Christophe Taylor <>
  • person_outline Guorong Xu <>

Publication for RNA Comprehensive Multi-Processor Analysis System for Sequencing

RNA CoMPASS in pipelines

 (2)
2016
PMCID: 4940872
PMID: 27402152
DOI: 10.1186/s40478-016-0338-z

[…] from the nt blast searches were filtered to eliminate matches with an e-value of greater than 10e−6. the results were then fed into megan 4 v4.70.4 for visualization of taxonomic classifications []. rna compass was run in parallel on three 2x2.66 ghz 12 core intel xeon mac pro computers with 64-96gbs of memory each., raw sequence data from rna-seq and dna-seq were aligned to a reference […]

2016
PMCID: 4940872
PMID: 27402152
DOI: 10.1186/s40478-016-0338-z

[…] number (in process)., metatranscriptome analysis was performed by running single-end or one pair from paired-end sequencing data through our automated rna-seq exogenous organism analysis software, rna compass []. within rna compass, reads were aligned to the human reference genome, hg19 (ucsc), plus a splice junction database (which was generated using the make transcriptome application […]


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

RNA CoMPASS in publication

PMCID: 4940872
PMID: 27402152
DOI: 10.1186/s40478-016-0338-z

[…] number (in process)., metatranscriptome analysis was performed by running single-end or one pair from paired-end sequencing data through our automated rna-seq exogenous organism analysis software, rna compass []. within rna compass, reads were aligned to the human reference genome, hg19 (ucsc), plus a splice junction database (which was generated using the make transcriptome application […]


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

RNA CoMPASS institution(s)
Department of Computer Science, University of New Orleans Lakefront, New Orleans, LA, USA; Department of Pathology, Tulane University, New Orleans, LA, USA; Department of Mathematics, Tulane University, New Orleans, LA, USA; Department of Mathematics, Tulane University, New Orleans, LA, USA; Department of Pathology, Tulane University, New Orleans, LA, USA; Department of Microbiology, Immunology and Parasitology, Louisiana State University Health Sciences Center, New Orleans, LA, USA; Research Institute for Children, Children's Hospital of New Orleans, New Orleans, LA, USA

RNA CoMPASS reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review RNA CoMPASS