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Near-optimal RNA-Seq quantification

Bray, Nicolas L. and Pimentel, Harold and Melsted, Páll and Pachter, Lior (2015) Near-optimal RNA-Seq quantification. . (Unpublished) https://resolver.caltech.edu/CaltechAUTHORS:20170303-114628470

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Abstract

We present a novel approach to RNA-Seq quantification that is near optimal in speed and accuracy. Software implementing the approach, called kallisto, can be used to analyze 30 million unaligned paired-end RNA-Seq reads in less than 5 minutes on a standard laptop computer while providing results as accurate as those of the best existing tools. This removes a major computational bottleneck in RNA-Seq analysis.


Item Type:Report or Paper (Discussion Paper)
Related URLs:
URLURL TypeDescription
http://arxiv.org/abs/1505.02710v2arXivDiscussion Paper
Additional Information:Simulations and analysis: The parameters and procedures used for the results and figures in the paper are available via a snakefile16 at https://github.com/pachterlab/kallisto_paper_analysis. Software: The kallisto program is available for download from http://pachterlab.github.io/kallisto.
Record Number:CaltechAUTHORS:20170303-114628470
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20170303-114628470
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:74699
Collection:CaltechAUTHORS
Deposited By: George Porter
Deposited On:03 Mar 2017 20:58
Last Modified:03 Oct 2019 16:41

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