Fast Unifrac statistics

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Associated diseases

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Fast Unifrac specifications

Information


Unique identifier OMICS_19783
Name Fast Unifrac
Interface Web user interface
Restrictions to use None
Programming languages Python
Computer skills Basic
Stability No
Maintained No

Maintainer


This tool is not available anymore.

Additional information


Fast Unifrac is also available into the PyCogent package available at https://github.com/pycogent/pycogent/.

Publication for Fast Unifrac

Fast Unifrac in publications

 (108)
PMCID: 5904092
PMID: 29667106
DOI: 10.1186/s13568-018-0587-2

[…] belonged to glomeromycota phylum were obtained. the alpha diversity indices of amf were calculated using mothur (schloss et al. ). a principal coordinate analysis (pcoa) on the basis of the weighted fast unifrac metric was carried out to examine the effect of inorganic and organic fertilizers on amf community composition and to compare between-sample variations (marsh et al. ). redundancy […]

PMCID: 5886961
PMID: 29629026
DOI: 10.4162/nrp.2018.12.2.101

[…] used to define species richness and diversity. in addition, the chao 1 and shannon estimator were used to calculate microbiota richness and diversity in mothur and a distance matrix was created in fast unifrac (chunlab inc.: seoul, korea)., data for each group are presented as mean with standard errors (sem). multiple comparisons between the groups were conducted by one-way analyses […]

PMCID: 5697093
PMID: 29201150
DOI: 10.1186/s13099-017-0218-5

[…] inc.). the alpha diversity analysis, including rarefaction curve and diversity indices, was carried out. the beta diversity, including principal coordinate analysis (pca), was analyzed based on fast unifrac []. the core microbiota was defined as including microorganisms present in more than 80% of dog feces in each diet group, and at the same time accounting for more than 0.1% of the total […]

PMCID: 5715329
PMID: 29250036
DOI: 10.3389/fmicb.2017.02178

[…] of 43 otus, 14 were 97% or less similar to known morphospecies references., community biogeography was assessed using principal coordinate analyses (pcoa), dis/similarity matrices with jaccard or fast unifrac indices (hamady et al., ) and a presence/absence matrix of otus. the jaccard index was used to observe community patterns and fast unifrac for the same goal, but taking into account […]

PMCID: 5666202
PMID: 28920403
DOI: 10.5713/ajas.17.0553

[…] index, and good’s coverage indices were calculated at a 3% dissimilarity level using mothur []. the relationships between samples were investigated by principal coordinate analyses (pcoa) using fast unifrac distances []. pyrosequencing reads obtained from this study were deposited in the embl sra database under study accession number prj eb4428 […]


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Fast Unifrac institution(s)
Department of Computer Science, University of Colorado, Boulder, CO, USA; Department of Chemistry and Biochemistry, University of Colorado, Boulder, CO, USA; Center for Genome Sciences, Washington University School of Medicine, St. Louis, MO, USA
Fast Unifrac funding source(s)
Supported in part by NIH grants 1R01HG004872-01, 1U01HG004866-01, and P01DK078669, by the Crohn's and Colitis Foundation of America, and by a Bill and Melinda Gates Foundation Mal-ED Network Discovery Project.

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