Copy number variants : methods and protocols / edited by Derek M. Bickhart.

Includes bibliographical references and index.

Identification of copy number variants from SNP arrays using PennCNV / Li Fang and Kai Wang -- Using SAAS-CNV to detect and characterize somatic copy number alterations in cancer genomes from next generation sequencing and SNP array data / Zhongyang Zhang and Ke Hao -- Statistical detection of genome differences based on CNV segments / Yang Zhou, Derek M. Bickhart, and George E. Liu -- Whole-genome shotgun sequence CNV detection using read depth / Fatma Kahveci and Can Alkan -- Read depth analysis to identify CNV in bacteria using CNOGpro / Ola Brynildsrud -- Using HaMMLET for bayesian segmentation of WGS read-depth data / John Wiedenhoeft and Alexander Schliep -- Split-read indel and structural variant calling using PINDEL / Kai Ye, Li Guo, Xiaofei Yang, Eric-Wubbo Lamijer, Keiran Raine, and Zemin Ning -- Detecting small inversions using SRinversion / Ruoyan Chen, Yu Lung Lau, and Wanling Yang -- Detection of CNVs in NGS data using VS-CNV / Nathan Fortier, Gabe Rudy, and Andreas Scherer -- Structural variant breakpoint detection with novoBreak / Zechen Chong and Ken Chen -- Use of RAPTR-SV to identify SVs from read pairing and split read signatures / Derek M. Bickhart -- Versatile identification of copy number variants with canvas / Sergii Ivakhno and Eric Roller -- Randomized iterative approach for SV discovery with SVelter / Xuefang Zhao -- Analysis of population-genetic properties of copy number variations / Lingyang Xu, Yang Liu, Derek M. Bickhart, JunYa Li, and George E. Liu -- Validation of genomic structural variants through long sequencing technologies / Xuefang Zhao -- Structural variation detection and analysis using bionano optical mapping / Saki Chan, Ernest Lam, Michael Saghbini, Sven Bocklandt, Alex Hastie, Han Cao, Erik Holmlin, and Mark Borodkin.