SFFT: Sparse Fast Fourier Transform
Sparse Fast Fourier Transform : The discrete Fourier transform (DFT) is one of the most important and widely used computational tasks. Its applications are broad and include signal processing, communications, and audio/image/video compression. Hence, fast algorithms for DFT are highly valuable. Currently, the fastest such algorithm is the Fast Fourier Transform (FFT), which computes the DFT of an
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Normalization of ChIP-seq data with control Kun Liang and S¨und¨uz Kele¸s Department of Statistics Department of Biostatistics and Medical Informatics University of Wisconsin-Madison, 53706 email: liang@biostat.wisc.edu July 19, 2011 Abstract Motivation: ChIP-seq has become an important tool for identifying genome-wide protein- DNA interactions, including transcription factor binding and histone
Statistical Issues in the Analysis of ChIP-Seq and RNA-Seq Data
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Computation for ChIP-seq and RNA-seq studies
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What is principal component analysis? - Nature Biotechnology
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主に計算機科学の機械学習・データマイニング系の説明で、バイオの雑誌に載った解説記事です。ツールを使いこなす人が、中身を知りたかったり、作る人に変身したい場合や、情報科学(機械学習、データマイニング系）の人が、ゲノム解析などでどうやって利用されているのかを知るのに良いとおもう。追加する記事募集です。 決定木の解説 What are decision trees? Carl Kingsford & Steven L Salzberg Nature Biotechnology 26, 1011 - 1013 (2008) http://www.nature.com/nbt/journal/v26/n9/abs/nbt0908-1011.html EMアルゴリズムの解説 What is the expectation maximization algorithm? Chuong B Do & Se
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Support Vector Machines and Kernels for Computational Biology Asa Ben-Hur , Contributed equally to this work with: Asa Ben-Hur, Cheng Soon Ong Affiliation Department of Computer Science, Colorado State University, Fort Collins, Colorado, United States of America ⨯ Contributed equally to this work with: Asa Ben-Hur, Cheng Soon Ong Current address: Department of Computer Science, ETH, Zürich, Switze
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A comparison of batch effect removal methods for enhancement of prediction performance using MAQC-II microarray gene expression data
Random forests for genomic data analysis
Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments
http://pages.stat.wisc.edu/~keles/Papers/SM_Manuscript_ChIP_Seq_v9.pdf
A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis : Abstract : Nature Biotechnology
Modelling and measuring single cell RNA expression levels find considerable transcriptional differences among phenotypically identical cells - BMC Genomics
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Judgment algorithm for periodicity of time series data based on Bayesian information criterion - PubMed
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