Krona statistics

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Citations per year

Number of citations per year for the bioinformatics software tool Krona
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Tool usage distribution map

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

This word cloud represents Krona usage per disease context
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Popular tool citations

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Protocols

Krona specifications

Information


Unique identifier OMICS_01498
Name Krona
Alternative names KronaTools, radiant
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS
Programming languages Javascript, Perl, Shell (Bash)
License BSD 2-clause “Simplified” License
Computer skills Advanced
Version 2.7
Stability Stable
Source code URL https://codeload.github.com/marbl/Krona/tar.gz/v2.7
Maintained Yes
Wikipedia https://github.com/marbl/Krona/wiki

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Versioning


No version available

Documentation


Maintainer


  • person_outline Brian Ondov

Publication for Krona

Krona citations

 (109)
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What Is the Role of Archaea in Plants? New Insights from the Vegetation of Alpine Bogs

2018
PMCID: 5956146
PMID: 29743201
DOI: 10.1128/mSphere.00122-18
call_split See protocol

[…] re of the archaeal community was aligned and annotated with the RefSeq database as a reference (). The taxonomic structure was then exported via the MG-RAST API server () and further visualized using krona tool version 2.7 (). […]

call_split

Agricultural Freshwater Pond Supports Diverse and Dynamic Bacterial and Viral Populations

2018
Front Microbiol
PMCID: 5928236
PMID: 29740420
DOI: 10.3389/fmicb.2018.00792
call_split See protocol

[…] ach filter fraction, and the sample as a whole, were defined as OTUs in 100% of samples determined with QIIME’s compute_core_microbiome.py script (). Core OTUs were then visualized using ggplot2, and Krona (; ). […]

library_books

Unifying the global phylogeny and environmental distribution of ammonia oxidising archaea based on amoA genes

2018
Nat Commun
PMCID: 5904100
PMID: 29666365
DOI: 10.1038/s41467-018-03861-1

[…] (Rambaut, A., FigTree v1.4.3, http://beast.bio.ed.ac.uk/figtree, 2016), and environmental and molecular composition data were displayed in the phylogeny with iTOL v3, and in hierarchical charts using Krona. MAFFT, Muscle, ProbCons and Probalign analyses were performed through the CIPRES Science Gateway, and EMBOSS tools were used through the Galaxy platform (http://usegalaxy.org). […]

call_split

Fungal community profiles in agricultural soils of a long term field trial under different tillage, fertilization and crop rotation conditions analyzed by high throughput ITS amplicon sequencing

2018
PLoS One
PMCID: 5886558
PMID: 29621291
DOI: 10.1371/journal.pone.0195345
call_split See protocol

[…] fungal genera raw data were transformed into ranks to achieve normalized distribution for Three-Way-ANOVA (Shapiro-Wilk, p = 0.05; Brown-Forsythe, p = 0.05) with post-hoc test Holm-Sidak (p = 0.05). Krona plots (– Files) to zoom into taxonomic assignments of treatment replicates were designed by using the interactive metagenomic visualization web browser []. […]

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Analysis of Bacterial Diversity in Different Heavy Oil Wells of a Reservoir in South Oman with Alkaline pH

2018
PMCID: 5884125
PMID: 29755805
DOI: 10.1155/2018/9230143
call_split See protocol

[…] those phyla which appeared in 75% of the samples were selected. The relative abundance of the genera present in all 10 soil samples was plotted by a heatmap and graphically represented by interactive Krona charts. β-Diversity or community similarity analysis was done by determining the pairwise distances using the phylogenetic distance metric, UniFrac generated by QIIME []. Monte Carlo simulations […]

library_books

Linking Microbial Community Structure and Function During the Acidified Anaerobic Digestion of Grass

2018
Front Microbiol
PMCID: 5871674
PMID: 29619022
DOI: 10.3389/fmicb.2018.00540

[…] ple 17 and 12% of proteins assigned to Negativicutes and Gammaproteobacteria in the grass biofilms compared to 2% and none assigned to these taxa in the leachate fraction (see interactive view of the Krona plots). […]


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Krona institution(s)
National Biodefense Analysis and Countermeasures Center, Frederick, MD, USA

Krona review

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senaj

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Desktop
Can be used with multiple metagenomic analysis tools like MEGAN, Kraken, and CLARK. Generates very appealing taxonomic graphics.