(Q24288698)

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

describes a project that uses

Jupyter notebook file

1 reference

1 reference

ggplot2

ggplot

2 references

10 June 2022

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&rettype=xml&id=3632530

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

phyloseq

object named as

phyloseq

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

cites work

Structure, function and diversity of the healthy human microbiome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Enterotypes of the human gut microbiome

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Publish your computer code: it is good enough

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

QIIME allows analysis of high-throughput community sequencing data

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Why most published research findings are false

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Bioconductor: open software development for computational biology and bioinformatics

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

An invitation to reproducible computational research

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Sequencing technologies - the next generation

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Environmental genome shotgun sequencing of the Sargasso Sea

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Whole-genome random sequencing and assembly of Haemophilus influenzae Rd

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

The case for open computer programs

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Reproducible Research in Computational Science

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

A molecular view of microbial diversity and the biosphere

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Unlocking the potential of metagenomics through replicated experimental design

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

phangorn: phylogenetic analysis in R

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

UniFrac: a new phylogenetic method for comparing microbial communities

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Picante: R tools for integrating phylogenies and ecology

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

The Genboree Microbiome Toolset and the analysis of 16S rRNA microbial sequences

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

PCR biases distort bacterial and archaeal community structure in pyrosequencing datasets

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

mcaGUI: microbial community analysis R-Graphical User Interface (GUI).

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Phyloseq: a bioconductor package for handling and analysis of high-throughput phylogenetic sequence data

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

CloVR: a virtual machine for automated and portable sequence analysis from the desktop using cloud computing

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

OTUbase: an R infrastructure package for operational taxonomic unit data

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

PhylOTU: a high-throughput procedure quantifies microbial community diversity and resolves novel taxa from metagenomic data.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Visualization and statistical comparisons of microbial communities using R packages on Phylochip data

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

PANGEA: pipeline for analysis of next generation amplicons

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

NeatMap--non-clustering heat map alternatives in R.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

CD-HIT Suite: a web server for clustering and comparing biological sequences

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Fast UniFrac: facilitating high-throughput phylogenetic analyses of microbial communities including analysis of pyrosequencing and PhyloChip data

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Quantitative and qualitative beta diversity measures lead to different insights into factors that structure microbial communities

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Reproducible research: a bioinformatics case study

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Microarray data analysis: from disarray to consolidation and consensus

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Reproducible research and Biostatistics

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Multivariate dispersion as a measure of beta diversity.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

Shotgun sequencing of the human genome.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3632530

29 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23630581

12 December 2020

inferred from PubMed ID database lookup

Computational science: ...Error

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23630581

12 December 2020

inferred from PubMed ID database lookup

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0061217

7 January 2021

Compositional dissimilarity as a robust measure of ecological distance

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0061217

7 January 2021

Analysis of a complex of statistical variables into principal components

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0061217

7 January 2021

Some distance properties of latent root and vector methods used in multivariate analysis

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0061217

7 January 2021

IPython: A System for Interactive Scientific Computing

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0061217

7 January 2021

Simultaneous analysis of a sequence of paired ecological tables: A comparison of several methods

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0061217

7 January 2021

Bootstrapping Phylogenetic Trees: Theory and Methods

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0061217

7 January 2021

The Split-Apply-Combine Strategy for Data Analysis

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0061217

7 January 2021

Canonical Correspondence Analysis: A New Eigenvector Technique for Multivariate Direct Gradient Analysis

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0061217

7 January 2021

https://opencitations.net/index/coci/api/v1/references/10.1371/JOURNAL.PONE.0061217

1 reference

24 May 2022

Identifiers

DOI

10.1371/JOURNAL.PONE.0061217

1 reference

92325

ADS bibcode

2013PLoSO...861217M

0 references

92325

1 reference

1 reference

1 reference