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CopyRighter specifications

Information


Unique identifier OMICS_06547
Name CopyRighter
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Perl
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for CopyRighter

CopyRighter in publications

 (14)
PMCID: 5828423
PMID: 29482646
DOI: 10.1186/s40168-018-0420-9

[…] and archaeal clades, based on ∼ 6,800 public sequenced genomes and using several phylogenetic methods. further, we assess the accuracy of gcns predicted by three recently published tools (picrust, copyrighter, and paprica) over a wide range of taxa and for 635 microbial communities from varied environments. we find that regardless of the phylogenetic method tested, 16s gcns could […]

PMCID: 5711877
PMID: 29196695
DOI: 10.1038/s41598-017-17080-z

[…] taxonomic unit (otu) count table was constructed from the graftm output and counts were converted to relative abundances with adjustments for lineage-specific 16s gene copy number variation using copyrighter v0.46. variation in community composition under different fallow treatments was assessed using permutational multivariate analysis of variance (permanova), and visualised using […]

PMCID: 5704573
PMID: 29179769
DOI: 10.1186/s40168-017-0369-0

[…] 100 is the sequence length (bp) of the metegenomic reads, and n 16s copy number is the average copy number of 16s rrna genes per cell. the average copy number within cells was calculated using copyrighter [] based on the “.biom” file generated by qiime. a clustering analysis (ca) and a principal coordinates analysis (pcoa) was performed based on the abundance matrix of arg subtypes […]

PMCID: 5765521
PMID: 29161760
DOI: 10.1111/ele.12878

[…] t al. ). 16s rrna gene quantities were calculated using the one point calibration method (brankatschk et al. ), corrected for variation in soil dry weight. bacterial cell counts were estimated using ‘copyrighter’ (angly et al. ), which corrects for variation in lineage‐specific 16s gene copy numbers across samples. note that this method does not account for unassigned otus., because of strong coll […]

PMCID: 5004803
PMID: 27575719
DOI: 10.1371/journal.pone.0161979

[…] []. both the 16s rrna-qpcr results and filtered otus table were then imported into galaxy [] for gene copy number correction to generate the final absolute abundance of each otu in each sample using copyrighter []. rarefaction curves were generated in qiime to the maximum number of sequences per sample (29,210) against shannon index (fig b in ). de-multiplexed sequencing data set were deposited […]


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CopyRighter institution(s)
Australian Centre for Ecogenomics/School of Chemistry and Molecular Biosciences/The University of Queensland, St Lucia, Brisbane, QLD, Australia

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