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Knime4Bio specifications

Information


Unique identifier OMICS_01143
Name Knime4Bio
Software type Framework/Library
Interface Command line interface, Graphical user interface
Restrictions to use None
Operating system Unix/Linux
License MIT License
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Documentation


Publication for Knime4Bio

Knime4Bio citations

 (3)
library_books

hiPSC derived cardiomyocytes from Brugada Syndrome patients without identified mutations do not exhibit clear cellular electrophysiological abnormalities

2016
Sci Rep
PMCID: 4971529
PMID: 27485484
DOI: 10.1038/srep30967

[…] using bwa (version 0.6.2) and called using gatk (version 2.6) and samtools (version 0.1.19). on average, the mean depth was 503, and 96.4% of the targeted regions were covered at least 10 times. the knime4bio tool was used to manage and filter variants. synonymous variations that were not located at splice sites were excluded from further analysis. heterozygous and homozygous coding and splice […]

library_books

Dysfunction of the Voltage‐Gated K+ Channel β2 Subunit in a Familial Case of Brugada Syndrome

2016
PMCID: 4937261
PMID: 27287695
DOI: 10.1161/JAHA.115.003122

[…] were considered as rare if the maf was <0.1% in the exome aggregation consortium (exac) non‐finnish european population (http://exac.broadinstitute.org/, version 0.3, 33 370 individuals). knime4bio, a set of custom nodes for the interpretation of next‐generation sequencing data with knime, was used for all merging and filtering steps. validation experiments and familial segregation […]

library_books

Trends in IT Innovation to Build a Next Generation Bioinformatics Solution to Manage and Analyse Biological Big Data Produced by NGS Technologies

2015
Biomed Res Int
PMCID: 4466500
PMID: 26125026
DOI: 10.1155/2015/904541

[…] are now available. concerning ngs and big data, three extensions are proposed.knime extensions for next-generation sequencing [] is a set of free components and workflows dedicated to ngs analysis.knime4bio [] is a set of components for the filtering and manipulation of ngs vcf format files.knime big data extension [] is dedicated to high performance access and queries on big data. […]


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Knime4Bio institution(s)
Institut du thorax, Inserm UMR 915, Centre Hospitalier Universitaire de Nantes, Nantes, France; The Wellcome Trust Sanger Institute, Hinxton, Cambridge, UK
Knime4Bio funding source(s)
Inserm, the ‘Centre Hospitalier Universitaire’ of Nantes; the ‘Fédération Française de Cardiologie’ (FFC); ‘Fondation pour la Recherche Médicale’ (FRM); the Wellcome Trust (Grant n WT077008)

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