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bioRxiv · 10.1101/003665

Flexible analysis of transcriptome assemblies with Ballgown

Alyssa C Frazee·Geo Pertea·Andrew E Jaffe·Ben Langmead·Steven L Salzberg·Jeffrey T Leek
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Abstract

Introduction Introduction Negative control experiment Positive control experiment Confirmation of statistical... Analysis of RNA-seq experiments... Analysis of quantitative... Expression quantitative trait... Computational Efficiency Summary References A key advantage of RNA sequencing (RNA-seq) over hybridization-based technologies such as microarrays is that RNA-seq makes it possible to reconstruct complete gene structures, including multiple splice variants, from raw RNA-seq reads without relying on previously-established annotations [20, 32, 9]. But with this added flexibility, there are increased computational demands on upstream processing tasks such as alignment and ass ...

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Alyssa C Frazee, Geo Pertea, Andrew E Jaffe, Ben Langmead, Steven L Salzberg, Jeffrey T Leek. 2014-03-30. Flexible analysis of transcriptome assemblies with Ballgown. https://doi.org/10.1101/003665

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