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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 (Unpublished)

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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 Paper
Melsted, Páll0000-0002-8418-6724
Pachter, Lior0000-0002-9164-6231
Additional Information:Simulations and analysis: The parameters and procedures used for the results and figures in the paper are available via a snakefile16 at Software: The kallisto program is available for download from
Record Number:CaltechAUTHORS:20170303-114628470
Persistent URL:
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:74699
Deposited By: George Porter
Deposited On:03 Mar 2017 20:58
Last Modified:09 Mar 2020 13:19

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