Bioinformatics

Evaluation of de novo transcriptome assemblies from RNA-Seq data
Bo Li, Nathanael Fillmore, Yongsheng Bai, Mike Collins, James A. Thomson, Ron Stewart, Colin N. Dewey

bioRxiv 006338; doi: https://doi.org/10.1101/006338

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Powerful tests for multi-marker association analysis using ensemble learning
Badri Padhukasahasram, Chandan K. Reddy, L. Keoki Williams

bioRxiv 005405; doi: https://doi.org/10.1101/005405

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Identification, annotation and visualisation of extreme changes in splicing from RNA-seq experiments with SwitchSeq
Mar Gonzàlez-Porta, Alvis Brazma

bioRxiv 005967; doi: https://doi.org/10.1101/005967

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iRAP - an integrated RNA-seq Analysis Pipeline
Nuno A. Fonseca, Robert Petryszak, John C. Marioni, Alvis Brazma

bioRxiv 005991; doi: https://doi.org/10.1101/005991

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Significantly distinct branches of hierarchical trees: A framework for statistical analysis and applications to biological data
Guoli Sun, Alexander Krasnitz

bioRxiv 002188; doi: https://doi.org/10.1101/002188

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Simultaneous estimation of transcript abundances and transcript specific fragment distributions of RNA-Seq data with the Mix² model
Andreas Tuerk, Gregor Wiktorin

bioRxiv 005918; doi: https://doi.org/10.1101/005918

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Exploring community structure in biological networks with random graphs
Pratha Sah, Lisa O. Singh, Aaron Clauset, Shweta Bansal

bioRxiv 001545; doi: https://doi.org/10.1101/001545

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A comparative study of techniques for differential expression analysis on RNA-Seq data
Zong Hong Zhang, Dhanisha J. Jhaveri, Vikki M. Marshall, Denis C. Bauer, Janette Edson, Ramesh K. Narayanan, Gregory J. Robinson, Andreas E. Lundberg, Perry F. Bartlett, Naomi R. Wray, Qiong-Yi Zhao

bioRxiv 005611; doi: https://doi.org/10.1101/005611

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Inference of phenotype-defining functional modules of protein families for microbial plant biomass degraders
S. G. A. Konietzny, P. B. Pope, A. Weimann, A. C. McHardy

bioRxiv 005355; doi: https://doi.org/10.1101/005355

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READemption – A tool for the computational analysis of deep-sequencing-based transcriptome data
Konrad U. Förstner, Jörg Vogel, Cynthia M. Sharma

bioRxiv 003723; doi: https://doi.org/10.1101/003723

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Bioinformatics

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