RAUR specifications

Information


Unique identifier OMICS_13127
Name RAUR
Alternative name Re-alignment of unmapped reads
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Reads, parameter K
Input format FASTQ
Output data Trimmed reads
Output format FASTQUnix/Linux
Operating system Unix/Linux
Programming languages Perl
Computer skills Advanced
Stability No
Requirements
BWA, Bowtie2, soap
Source code URL http://netlab.csu.edu.cn/bioinformatics/RAURtools.zip
Maintained No

Versioning


No version available

Documentation


Maintainer


This tool is not available anymore.

Publication for Re-alignment of unmapped reads

RAUR citation

library_books

Recognition memory induced gene expression in the perirhinal cortex: A transcriptomic analysis

2017
PMCID: 5469443
PMID: 28389337
DOI: 10.1016/j.bbr.2017.04.007

[…] sequence reads were aligned and mapped to the rat genome in a two-step process. Using TopHat an average of 7.18E + 06 reads (±2.02E + 06) per sample library mapped uniquely to 29,998 annotated genes. Re-alignment of unmapped reads using Bowtie2 produced a total of 9.98E + 06 (±3.25E + 06) average mapped reads per library. This corresponded to successful alignment of approximately 97% of total read […]

RAUR institution(s)
School of Information Science and Engineering, Central South University, Changsha, China; Department of Computer Science, Georgia State University, Atlanta, GA, USA
RAUR funding source(s)
National Natural Science Foundation of China under grant nos. 61232001, 61379108, and 61370172; Hunan Provincial Innovation Foundation For Postgraduate (CX2013B070); Science and Technology Plan Projects of Science and Technology Bureau of Hengyang City (grant 2013KJ29)

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