CODOC statistics

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Citations per year

Number of citations per year for the bioinformatics software tool CODOC

Tool usage distribution map

This map represents all the scientific publications referring to CODOC per scientific context
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Associated diseases

This word cloud represents CODOC usage per disease context

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CODOC specifications


Unique identifier OMICS_04175
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Input format BAM
Operating system Unix/Linux
Programming languages Java, R
Computer skills Advanced
Version 0.0.2
Stability Stable
Maintained Yes




No version available

Publication for CODOC

CODOC citations


The Borrelia burgdorferi RelA/SpoT Homolog and Stringent Response Regulate Survival in the Tick Vector and Global Gene Expression during Starvation

PLoS Pathog
PMCID: 4570706
PMID: 26371761
DOI: 10.1371/journal.ppat.1005160
call_split See protocol

[…] ion increase or decrease). We also extracted strand-specific, normalized depth-of-coverage signals (i.e., the counts of reads overlapping a particular genomic position) from the read alignments using CODOC [] and converted them to the BigWig data format to enable manual inspection in a genome browser. […]


Germline recessive mutations in PI4KA are associated with perisylvian polymicrogyria, cerebellar hypoplasia and arthrogryposis

Hum Mol Genet
PMCID: 4459391
PMID: 25855803
DOI: 10.1093/hmg/ddv117
call_split See protocol

[…] ). Variants were called with Platypus version 0.5.2 () ( with default settings except for minFlank = 0. Coverage was calculated on deduplicated BAM files using bedtools and CODOC (). Variant calling was performed across all five BAM files simultaneously, producing a multi-sample VCF. The WES data from the family were extensively examined in Ingenuity Variant Analysis (ve […]

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CODOC institution(s)
Center for Integrative Bioinformatics Vienna (CIBIV), Max F Perutz Laboratories, University of Vienna and Medical University of Vienna, Vienna, Austria
CODOC funding source(s)
Supported by the CIBIV household budget.

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