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Copyright © 2015 John Wiley & Sons, Inc. cgpPindel is a modified version of Pindel that is optimized for detecting somatic insertions and deletions (indels) in cancer genomes and other samples compared to a reference control. Post-hoc filters remove false positive calls, resulting in a high-quality dataset for downstream analysis. This unit provides concise instructions for both a simple ‘one-shot’ execution of cgpPindel and a more detailed approach suitable for large-scale compute farms. © 2015 by John Wiley & Sons, Inc.

Original publication

DOI

10.1002/0471250953.bi1507s52

Type

Journal article

Journal

Current Protocols in Bioinformatics

Publication Date

01/12/2015

Volume

52

Pages

15.7.1 - 15.7.12