samExploreR: exploring reproducibility and robustness of RNA-seq results based on SAM files | Zendy

Alexey Stupnikov | Zendy; Shailesh Tripathi | Zendy; Ricardo De Matos Simoes | Zendy; Darragh G. McArt | Zendy; Manuel SaltoTellez | Zendy; Galina Glazko | Zendy; Matthias Dehmer | Zendy; Frank EmmertStreib | Zendy

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samExploreR: exploring reproducibility and robustness of RNA-seq results based on SAM files

Author(s) -

Alexey Stupnikov,

Shailesh Tripathi,

Ricardo De Matos Simoes,

Darragh G. McArt,

Manuel SaltoTellez,

Galina Glazko,

Matthias Dehmer,

Frank EmmertStreib

Publication year - 2016

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btw475

Subject(s) - reproducibility , robustness (evolution) , rna seq , computer science , computational biology , data mining , biology , statistics , mathematics , genetics , gene , transcriptome , gene expression

Data from RNA-seq experiments provide us with many new possibilities to gain insights into biological and disease mechanisms of cellular functioning. However, the reproducibility and robustness of RNA-seq data analysis results is often unclear. This is in part attributed to the two counter acting goals of (i) a cost efficient and (ii) an optimal experimental design leading to a compromise, e.g. in the sequencing depth of experiments.

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