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REMBRANDTS specifications

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Unique identifier OMICS_23961
Name REMBRANDTS
Alternative name REMoving Bias from Rna-seq ANalysis of Differential Transcript Stability
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS
Programming languages R, Shell (Bash)
Computer skills Advanced
Stability Stable
Requirements
gplots, DESeq, rembrandts
Maintained Yes

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Publication for REMoving Bias from Rna-seq ANalysis of Differential Transcript Stability

REMBRANDTS in publication

PMCID: 5896957
PMID: 29528287
DOI: 10.7554/eLife.33178.037

[…] judged by the transcripts per million (tpm) kallisto calculation, was used to compute 3’utr lengths for downstream gene-level analyses., changes in rna stability were inferred from rnaseq data using rembrandts (), following hisat2 mapping to the grch38 combined genome and transcriptome indexes provided by the authors (). reads mapping to constitutive exons and introns of ensembl grch37.87 […]

REMBRANDTS institution(s)
Department of Human Genetics, McGill University, Montreal, QC, Canada; McGill University and Genome Quebec Innovation Centre, Montreal, QC, Canada; Department of Biochemistry and Biophysics, University of California, San Francisco, CA, USA; Department of Urology, University of California, San Francisco, CA, USA; Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco, CA, USA
REMBRANDTS funding source(s)
Supported by funds from McGill University Faculty of Medicine and National Cancer Institute (NCI) grant CA194077.

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