Evaluation of somatic copy number estimation tools for whole-exome sequencing data
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- (rev. 3)
- Hyungyong Kim
Structured data
- About
- CNV calling from NGS data
- Date Published
- Publisher
- Briefings in Bioinformatics
- URL
- http://www.ncbi.nlm.nih.gov/pubmed/26210357
Evaluation of 6 somatic CNV detection tools - ADTEx, CONTRA, Control-FREEC, EXCAVATOR, ExomeCNV, VarScan 2
ADTEx and EXCAVATOR had best performance.
Table of Contents
Summary #
Introduction #
Materials and methods #
Six algorithms tested #
Dataset analyzed #
Generation of reference CNVs #
Parameters for the algorithms #
Results #
Variation in CNV count and sizes among algorithms #
Overlap between WES CNV and reference CNVs #
Precision, recall and F1-score #
Discussion #
Suggested Pages #
- 0.025 TCGA
- 0.025 Washington University
- 0.025 April 13
- 0.025 NGS
- 0.025 BAM
- 0.025 November 4
- 0.025 April 18
- 0.025 SOLiD
- 0.025 Gene-based comparative analysis of tools for estimating copy number alterations using whole-exome sequencing data
- 0.025 saasCNV
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