AneuFinder pipeline

AneuFinder specifications

Information


Unique identifier OMICS_15772
Name AneuFinder
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License Artistic License version 2.0
Computer skills Advanced
Version 1.2.1
Stability Stable
Requirements GenomicRanges, cowplot, AneuFinderData
Maintained Yes

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Documentation


Maintainer


  • person_outline Floris Foijer <>

Publication for AneuFinder

AneuFinder IN pipeline

2016
PMCID: 4888403
PMID: 27246599
DOI: 10.1186/s13059-016-0976-2

[…] files were sorted using samtools (version 0.1.18) [25] and duplicate reads were marked using bamutil (version 1.0.3). duplicate reads and ambiguous alignments (mapq >10) were filtered out using aneufinder. estimated complexity was calculated by downsampling the reads several times and determining the fraction of unique reads each time. then the number of reads sequenced (seq_reads) […]

AneuFinder funding source(s)
This work was supported by a Dutch Cancer Society grant (KWF grant RUG-2012-5549) and a Groningen Foundation for Paediatric Oncology (SKOG) grant, and by an NWO (The Netherlands Organisation for Scientific Research) MEERVOUD grant and a University of Groningen Rosalind Franklin Fellowship grant.

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