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ARCS specifications

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Unique identifier OMICS_15092
Name ARCS
Alternative name Assembly Roundup by Chromium Scaffolding
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data DNA alignment
Input format BAM
Output data A tab-separated value file listing all possible oriented sequence pairs, the number of supporting barcodes with gap sizes arbitrarily set at 10 bp.
Output format GV
Biological technology Illumina
Operating system Unix/Linux, Mac OS
Programming languages C++
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Requirements
Boost, GCC, Autotools
Maintained Yes

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Publication for Assembly Roundup by Chromium Scaffolding

ARCS citation

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The Genome of the Northern Sea Otter (Enhydra lutris kenyoni)

2017
PMCID: 5748697
PMID: 29232880
DOI: 10.3390/genes8120379

[…] incremented at each iteration) [], using scaffolds from all three abyss assemblies. cobbler was used once more to automatically fill remaining gaps with abyss contig sequences (same parameters). the assembly roundup by chromium scaffolding application (arcs) was used to further contiguate the assembly using 10x genomics linked reads (version 1.0.1; arcs parameters -s at 98, -c at 5, -l at 0, -d […]


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ARCS institution(s)
BC Cancer Agency, Genome Sciences Centre, Vancouver, BC, Canada
ARCS funding source(s)
This work has been supported by the National Human Genome Research Institute of the National Institutes of Health (under award No. R01HG007182), with additional support provided by Genome Canada, Genome British Columbia, and the British Columbia Cancer Foundation.

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