Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Papers: 10.7554/eLife.65088

https://doi.org/10.7554/eLife.65088

Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3

Cited by: 604
Author(s): Francesco Beghini, Lauren J. McIver, Aitor Blanco-Míguez, Léonard Dubois, Francesco Asnicar, Sagun Maharjan, Ana Mailyan, Paolo Manghi, Matthias Scholz, Andrew Maltez Thomas, Mireia Vallès-Colomer, George Weingart, Yancong Zhang, Moreno Zolfo, Curtis Huttenhower, Eric A. Franzosa, Nicola Segata
Published: over 3 years ago

Software Mentions 10

bioconductor: MMUPHin

Meta-analysis Methods with Uniform Pipeline for Heterogeneity in Microbiome Studies
Papers that mentioned: 2

cran: ART

Aligned Rank Transform for Nonparametric Factorial Analysis
Papers that mentioned: 580

cran: fpc

Flexible Procedures for Clustering
Papers that mentioned: 99

cran: lmerTest

Tests in Linear Mixed Effects Models
Papers that mentioned: 1,865

cran: PERMANOVA

Multivariate Analysis of Variance Based on Distances and Permutations
Papers that mentioned: 6,292

cran: rbiom

Read/Write, Transform, and Summarize 'BIOM' Data
Papers that mentioned: 2

pypi: MetaPhlAn

MetaPhlAn is a computational tool for profiling the composition of microbial communities (Bacteria, Archaea and Eukaryotes) from metagenomic shotgun sequencing data (i.e. not 16S) with species-level. With the newly added StrainPhlAn module, it is now possible to perform accurate strain-level microbial profiling.
Papers that mentioned: 306