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Title: riboviz 2: a flexible and robust ribosome profiling data analysis and visualization workflow
Abstract Motivation Ribosome profiling, or Ribo-seq, is the state-of-the-art method for quantifying protein synthesis in living cells. Computational analysis of Ribo-seq data remains challenging due to the complexity of the procedure, as well as variations introduced for specific organisms or specialized analyses. Results We present riboviz 2, an updated riboviz package, for the comprehensive transcript-centric analysis and visualization of Ribo-seq data. riboviz 2 includes an analysis workflow built on the Nextflow workflow management system for end-to-end processing of Ribo-seq data. riboviz 2 has been extensively tested on diverse species and library preparation strategies, including multiplexed samples. riboviz 2 is flexible and uses open, documented file formats, allowing users to integrate new analyses with the pipeline. Availability and implementation riboviz 2 is freely available at github.com/riboviz/riboviz.  more » « less
Award ID(s):
1936046 1936069
PAR ID:
10359254
Author(s) / Creator(s):
; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
Editor(s):
Valencia, Alfonso
Date Published:
Journal Name:
Bioinformatics
Volume:
38
Issue:
8
ISSN:
1367-4803
Page Range / eLocation ID:
2358 to 2360
Format(s):
Medium: X
Sponsoring Org:
National Science Foundation
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  2. ; (, Plant Methods)
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