Canvas protocols

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Canvas specifications

Information


Unique identifier OMICS_10999
Name Canvas
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Its primary input is aligned reads.
Input format BAM
Output data Its primary output is a report giving the copy number status of the genome.
Output format VCF
Operating system Unix/Linux, Windows
Programming languages C#
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Eric Roller <>

Publications for Canvas

Canvas in pipeline

2017
PMCID: 5800348
PMID: 29074561
DOI: 10.1136/jmedgenet-2017-104791

[…] ird. six hundred and five samples were generated using illumina sequencing chemistry as part of the national institute for health research (nihr) bioresource rare diseases project, and the manta and canvas software algorithms were used to detect cnvs. seventy-seven samples were generated using complete genomics sequencing chemistry, with cnvs identified using the complete genomics v.2.5 variant […]


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Canvas in publications

 (2)
PMCID: 5897357
PMID: 29650961
DOI: 10.1038/s41467-018-03672-4

[…] variants were collapsed considering only the protein-coding region in the canonical transcript of the protein-coding genes in the genome assembly grch37., copy number variation was identified using canvas and manta. deletions called by both manta and canvas with a reciprocal overlap of ≥20% were retained. of these, deletions were excluded if both failed standard illumina quality metrics […]

PMCID: 5677956
PMID: 29263824
DOI: 10.1038/s41525-017-0007-6

[…] performed using isaac. identification of somatic snvs and small somatic indels (<50 bp) was performed by strelka. large copy number variants and structural variants were respectively called with canvas and manta. the full workflow can be found in the tumour normal application of the illumina basespace platform […]


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Canvas institution(s)
Illumina Inc, San Diego, CA, USA; Illumina Cambridge Ltd, Essex, UK; Ashion Analytics, Phoenix, AZ, USA

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