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Strelka

Alternative name: Strelka2

Provides analysis of germline variation in small cohorts and somatic variation in tumor/normal sample pairs. Strelka is a variant calling method building upon the innovative Strelka somatic variant caller to improve upon aspects of variant calling for both germline and somatic analysis. The germline caller employs an efficient tiered haplotype model to improve accuracy and provide read-backed phasing, adaptively selecting between assembly and a faster alignment-based haplotyping approach at each variant locus. The germline caller also analyzes input sequencing data using a mixture-model indel error estimation method to improve robustness to indel noise.

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Strelka forum

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Strelka classification

Strelka specifications

Software type:
Application/Script
Restrictions to use:
None
Output format:
VCF, BAM
Operating system:
Unix/Linux
License:
GNU General Public License version 3.0
Version:
2.8.3
Registration required:
No
Interface:
Command line interface
Input format:
BAM
Biological technology:
Illumina
Programming languages:
C++, Perl
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes

Strelka distribution

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Strelka support

Maintainers

  • Christopher Saunders <>
  • Sangtae Kim <>
  • Konrad Scheffler <>
  • Aaron Halpern <>
  • Mitchell Bekritsky <>

Credits

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Publications

Institution(s)

Illumina, Inc., San Diego, CA, USA; Illumina Cambridge Ltd., Chesterford Research Park, Essex, UK

Link to literature

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