Papers: 10.1186/s12859-021-04193-6
https://doi.org/10.1186/s12859-021-04193-6
Comparison study of differential abundance testing methods using two large Parkinson disease gut microbiome datasets derived from 16S amplicon sequencing
Cited by: 32
Author(s): Zachary D Wallen
Published: about 4 years ago
Software Mentions 14
bioconductor: ALDEx2
Analysis Of Differential Abundance Taking Sample and Scale Variation Into AccountPapers that mentioned: 136
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bioconductor: baySeq
Empirical Bayesian analysis of patterns of differential expression in count dataPapers that mentioned: 139
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bioconductor: DECIPHER
Tools for curating, analyzing, and manipulating biological sequencesPapers that mentioned: 415
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bioconductor: DESeq2
Differential gene expression analysis based on the negative binomial distributionPapers that mentioned: 9,583
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bioconductor: edgeR
Empirical Analysis of Digital Gene Expression Data in RPapers that mentioned: 6,568
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bioconductor: metagenomeSeq
Statistical analysis for sparse high-throughput sequencingPapers that mentioned: 169
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bioconductor: phyloseq
Handling and analysis of high-throughput microbiome census dataPapers that mentioned: 1,702
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pypi: cutadapt
Adapter trimming and other preprocessing of high-throughput sequencing readsPapers that mentioned: 1,562
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pypi: lefse
LEfSe determines the features (organisms, clades, operational taxonomic units, genes, or functions) most likely to explain differences between classes by coupling standard tests for statistical significance with additional tests encoding biological consistency and effect relevance.Papers that mentioned: 4
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