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Old 11-20-2012, 02:00 AM   #1
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Default RNA-Seq: Streaming fragment assignment for real-time analysis of sequencing experimen

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Streaming fragment assignment for real-time analysis of sequencing experiments.

Nat Methods. 2012 Nov 18;

Authors: Roberts A, Pachter L

Abstract
We present eXpress, a software package for efficient probabilistic assignment of ambiguously mapping sequenced fragments. eXpress uses a streaming algorithm with linear run time and constant memory use. It can determine abundances of sequenced molecules in real time and can be applied to ChIP-seq, metagenomics and other large-scale sequencing data. We demonstrate its use on RNA-seq data and show that eXpress achieves greater efficiency than other quantification methods.


PMID: 23160280 [PubMed - as supplied by publisher]



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