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Pindel

Detects breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants at single-based resolution from next-generation sequence data. Pindel uses a pattern growth approach to identify the breakpoints of these variants from paired-end short reads.

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Pindel classification

Pindel specifications

Software type:
Package/Module
Restrictions to use:
None
Biological technology:
Illumina
Programming languages:
C++
Stability:
Stable
Interface:
Command line interface
Input format:
BAM, FASTQ
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:
Advanced
Maintained:
Yes

Pindel distribution

versioning

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No versioning.

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Pindel support

Documentation

Credits

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Publications

Institution(s)

EMBL Outstation European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK; Departments of Molecular Epidemiology, Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, Netherlands; Max Planck Institute for Molecular Genetics and International Max Planck Research School for Computational Biology and Scientific Computing, Berlin, Germany; The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK

Funding source(s)

NGI/EBI fellowship 050-72-436 from Netherlands Genomics Initiative

Link to literature

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