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Algorithms in Bioinformatics

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Cover of 'Algorithms in Bioinformatics'

Table of Contents

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    Book Overview
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    Chapter 1 QCluster: Extending Alignment-Free Measures with Quality Values for Reads Clustering
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    Chapter 2 Improved Approximation for the Maximum Duo-Preservation String Mapping Problem
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    Chapter 3 A Faster 1.375-Approximation Algorithm for Sorting by Transpositions
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    Chapter 4 A Generalized Cost Model for DCJ-Indel Sorting
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    Chapter 5 Efficient Local Alignment Discovery amongst Noisy Long Reads
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    Chapter 6 Efficient Indexed Alignment of Contigs to Optical Maps
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    Chapter 7 Navigating in a Sea of Repeats in RNA-seq without Drowning
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    Chapter 8 Linearization of Median Genomes under DCJ
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    Chapter 9 An LP-Rounding Algorithm for Degenerate Primer Design
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    Chapter 10 GAML: Genome Assembly by Maximum Likelihood
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    Chapter 11 A Common Framework for Linear and Cyclic Multiple Sequence Alignment Problems
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    Chapter 12 Entropic Profiles, Maximal Motifs and the Discovery of Significant Repetitions in Genomic Sequences
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    Chapter 13 Estimating Evolutionary Distances from Spaced-Word Matches
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    Chapter 14 On the Family-Free DCJ Distance
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    Chapter 15 New Algorithms for Computing Phylogenetic Biodiversity
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    Chapter 16 The Divisible Load Balance Problem and Its Application to Phylogenetic Inference
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    Chapter 17 Multiple Mass Spectrometry Fragmentation Trees Revisited: Boosting Performance and Quality
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    Chapter 18 An Online Peak Extraction Algorithm for Ion Mobility Spectrometry Data
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    Chapter 19 Best-Fit in Linear Time for Non-generative Population Simulation
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    Chapter 20 GDNorm: An Improved Poisson Regression Model for Reducing Biases in Hi-C Data
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    Chapter 21 Pacemaker Partition Identification
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    Chapter 22 Manifold de Bruijn Graphs
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    Chapter 23 Constructing String Graphs in External Memory
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    Chapter 24 Topology-Driven Trajectory Synthesis with an Example on Retinal Cell Motions
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    Chapter 25 A Graph Modification Approach for Finding Core–Periphery Structures in Protein Interaction Networks
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    Chapter 26 Interpretable Per Case Weighted Ensemble Method for Cancer Associations
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    Chapter 27 Reconstructing Mutational History in Multiply Sampled Tumors Using Perfect Phylogeny Mixtures
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