Literature DB >> 27429738

regionReport: Interactive reports for region-based analyses.

Leonardo Collado-Torres1, Andrew E Jaffe2, Jeffrey T Leek3.   

Abstract

regionReport is an R package for generating detailed interactive reports from regions of the genome. The report includes quality-control checks, an overview of the results, an interactive table of the genomic regions and reproducibility information. regionReport can easily be expanded with report templates for other specialized analyses. In particular, regionReport has an extensive report template for exploring derfinder results from annotation-agnostic RNA-seq differential expression analyses.

Entities:  

Keywords:  ChIP-seq; Genomics; Interactive; RNA-seq; Report; Reproducibility; Sequencing; Software

Year:  2015        PMID: 27429738     DOI: 10.12688/f1000research.6379.1

Source DB:  PubMed          Journal:  F1000Res        ISSN: 2046-1402


  4 in total

1.  Flexible expressed region analysis for RNA-seq with derfinder.

Authors:  Leonardo Collado-Torres; Abhinav Nellore; Alyssa C Frazee; Christopher Wilks; Michael I Love; Ben Langmead; Rafael A Irizarry; Jeffrey T Leek; Andrew E Jaffe
Journal:  Nucleic Acids Res       Date:  2016-09-29       Impact factor: 16.971

2.  recount workflow: Accessing over 70,000 human RNA-seq samples with Bioconductor.

Authors:  Leonardo Collado-Torres; Abhinav Nellore; Andrew E Jaffe
Journal:  F1000Res       Date:  2017-08-24

3.  RNAflow: An Effective and Simple RNA-Seq Differential Gene Expression Pipeline Using Nextflow.

Authors:  Marie Lataretu; Martin Hölzer
Journal:  Genes (Basel)       Date:  2020-12-10       Impact factor: 4.096

4.  CSI NGS Portal: An Online Platform for Automated NGS Data Analysis and Sharing.

Authors:  Omer An; Kar-Tong Tan; Ying Li; Jia Li; Chan-Shuo Wu; Bin Zhang; Leilei Chen; Henry Yang
Journal:  Int J Mol Sci       Date:  2020-05-28       Impact factor: 5.923

  4 in total

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