DaPars pipeline

DaPars specifications

Information


Unique identifier OMICS_07002
Name DaPars
Alternative name Dynamic analysis of Alternative PolyAdenylation from RNA-seq
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Documentation


Publication for Dynamic analysis of Alternative PolyAdenylation from RNA-seq

DaPars IN pipelines

 (2)
2018
PMCID: 5826926
PMID: 29507755
DOI: 10.1038/s41421-018-0019-0

[…] m6a methylation level., sequencing reads were mapped to the hg19 reference genome using hisat software. after multi-mapped reads were removed, fpkm values were calculated with cuffnorm software., dapars was used for the de novo identification of apa from rna-seq data42. fdr cutoff for dapars was 0.05, the absolute difference cutoff of mean pduis was set to 0.2, and the absolute log2 ratio […]

2018
PMCID: 5826926
PMID: 29507755
DOI: 10.1038/s41421-018-0019-0

[…] hisat software. after multi-mapped reads were removed, fpkm values were calculated with cuffnorm software., dapars was used for the de novo identification of apa from rna-seq data42. fdr cutoff for dapars was 0.05, the absolute difference cutoff of mean pduis was set to 0.2, and the absolute log2 ratio (fold change) cutoff of mean pduis must be no <1. in order to avoid false positive […]

DaPars institution(s)
Division of Biostatistics, Dan L Duncan Cancer Center, Baylor College of Medicine, Houston, Texas, USA; Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, Texas, USA; Department of Molecular Virology and Microbiology, Baylor College of Medicine, Houston, Texas, USA; Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA; Department of Pathology and Immunology, Baylor College of Medicine, Houston, Texas, USA; Department of Molecular Physiology and Biophysics, Baylor College of Medicine, Houston, Texas, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA; Department of Biochemistry and Molecular Biology, The University of Texas Medical School at Houston, Houston, Texas, USA

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