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comrad specifications

Information


Unique identifier OMICS_01344
Name comrad
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C++, Perl
Computer skills Advanced
Version 0.0.1
Stability Stable
Source code URL https://storage.googleapis.com/google-code-archive-source/v2/code.google.com/comrad/source-archive.zip
Maintained Yes

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Maintainer


  • person_outline Andrew McPherson <>

Publication for comrad

comrad citations

 (2)
library_books

Truncation and constitutive activation of the androgen receptor by diverse genomic rearrangements in prostate cancer

2016
PMCID: 5141345
PMID: 27897170
DOI: 10.1038/ncomms13668

[…] upstream of the ar gene locus, as well as splice junctions occurring within the ar upstream region (). splicing between ar exon 3 and upstream exons in tumour c-12a was also detected using the comrad algorithm designed for identifying fusion transcripts expressed from underlying genomic rearrangements ()., to understand these unusual ar splicing events in more detail, we inspected rna-seq […]

library_books

Comparative assessment of methods for the fusion transcripts detection from RNA Seq data

2016
PMCID: 4748267
PMID: 26862001
DOI: 10.1038/srep21597

[…] (product of third generation sequencing technologies) mixed with short reads, which does not fit the purpose of this study. mcpherson et al. developed three fusion detection software packages i.e. comrad, defuse and nfuse. comrad is the oldest software in this group, and is no longer maintained. nfuse software contains both defuse and nfuse scripts for fusion detection. the nfuse script […]


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comrad institution(s)
School of Computing Science, Simon Fraser University, Burnaby, BC, Canada; BC Cancer Agency, Vancouver, BC, Canada; Vancouver Prostate Centre, Vancouver, BC, Canada
comrad funding source(s)
Supported by the Natural Sciences and Engineering Research Council (NSERC), the Michael Smith Foundation for Health Research (MSFHR), the British Columbia Cancer Research Centre (BCCRC), and the Canadian Institutes of Health Research (CIHR) Bioinformatics training program. Additional funding was provided by the Bioinformatics for Combating Infectious Diseases (BCID) project funded by the Simon Fraser University (SFU) Community Trust Endowment Fund (CTEF).

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