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REPRODUCIBLE RESEARCH WORKFLOW IN R FOR THE ANALYSIS OF PERSONALIZED HUMAN MICROBIOME DATA
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scholarly article
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title
REPRODUCIBLE RESEARCH WORKFLOW IN R FOR THE ANALYSIS OF PERSONALIZED HUMAN MICROBIOME DATA
(English)
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main subject
reproducibility
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microbiome
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workflow
1 reference
based on heuristic
inferred from title
research workflow
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based on heuristic
inferred from title
author
David Relman
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David Relman
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3
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author name string
Benjamin Callahan
series ordinal
1
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Diana Proctor
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2
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Julia Fukuyama
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4
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Susan Holmes
series ordinal
5
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language of work or name
English
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publication date
2016
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published in
Pacific Symposium on Biocomputing
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volume
21
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page(s)
183-94
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describes a project that uses
Jupyter notebook file
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PubMed Central
cites work
Orchestrating high-throughput genomic analysis with Bioconductor
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4873301
retrieved
17 March 2017
phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data
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PubMed Central
reference URL
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retrieved
17 March 2017
Enterotypes of the human gut microbiome
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PubMed Central
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17 March 2017
QIIME allows analysis of high-throughput community sequencing data
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PubMed Central
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17 March 2017
Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4873301
retrieved
17 March 2017
SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
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17 March 2017
A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly
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17 March 2017
A molecular view of microbial diversity and the biosphere
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17 March 2017
Bacterial community variation in human body habitats across space and time
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PubMed Central
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7 April 2017
The Ribosomal Database Project: improved alignments and new tools for rRNA analysis
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PubMed Central
reference URL
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7 April 2017
Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB
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7 April 2017
Temporal and spatial variation of the human microbiota during pregnancy
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29 September 2017
Inter-Individual Differences in the Oral Bacteriome Are Greater than Intra-Day Fluctuations in Individuals
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PubMed Central
reference URL
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29 September 2017
Shiny-phyloseq: Web application for interactive microbiome analysis with provenance tracking.
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PubMed Central
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29 September 2017
Waste not, want not: why rarefying microbiome data is inadmissible
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29 September 2017
Collaborative cloud-enabled tools allow rapid, reproducible biological insights
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4873301
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29 September 2017
Temporal dynamics of the human vaginal microbiota
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4873301
retrieved
29 September 2017
pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4873301
retrieved
29 September 2017
Factors affecting human supragingival biofilm composition. I. Plaque mass
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4873301
retrieved
29 September 2017
Identifiers
DOI
10.1142/9789814749411_0018
1 reference
stated in
Consolidated OpenCitations Corpus – April 2017
OpenCitations bibliographic resource ID
4486069
OpenCitations bibliographic resource ID
4486069
1 reference
stated in
Consolidated OpenCitations Corpus – April 2017
OpenCitations bibliographic resource ID
4486069
PMCID
4873301
1 reference
stated in
Consolidated OpenCitations Corpus – April 2017
OpenCitations bibliographic resource ID
4486069
PubMed ID
26776185
1 reference
stated in
Consolidated OpenCitations Corpus – April 2017
OpenCitations bibliographic resource ID
4486069
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