ALDEx2m-package

ALDEx2m


    A differential abundance analysis for the comparison of two or more conditions. For example, single-organism and meta-RNA-seq high-throughput sequencing assays, or of selected and unselected values from in-vitro sequence selections. Uses a Dirichlet-multinomial model to infer abundance from counts, that has been optimized for three or more experimental replicates. Infers sampling variation and calculates the expected false discovery rate given the biological and sampling variation using the Wilcox rank test or Welches t-test (aldex.ttest) or the glm and Kruskal Wallis tests (aldex.glm). Reports both P and fdr values calculated by the Benjamini Hochberg correction.


 package

A differential abundance analysis for the comparison of
two or more conditions. For example, single-organism and
meta-RNA-seq high-throughput sequencing assays, or of selected
and unselected values from in-vitro sequence selections. Uses a
Dirichlet-multinomial model to infer abundance from counts,
that has been optimized for three or more experimental
replicates. Infers sampling variation and calculates the
expected false discovery rate given the biological and sampling
variation using the Wilcox rank test or Welches t-test
(aldex.ttest) or the glm and Kruskal Wallis tests (aldex.glm).
Reports both P and fdr values calculated by the Benjamini
Hochberg correction.

Greg Gloor

ALDEx2

Analysis of differential abundance taking sample variation into
account

ALDEx2m-package function

A differential abundance analysis for the comparison of two or more conditions. For example, single-organism and meta-RNA-seq high-throughput sequencing assays, or of selected and unselected values from in-vitro sequence selections. Uses a Dirichlet-multinomial model to infer abundance from counts, that has been optimized for three or more experimental replicates. Infers sampling variation and calculates the expected false discovery rate given the biological and sampling variation using the Wilcox rank test or Welches t-test (aldex.ttest) or the glm and Kruskal Wallis tests (aldex.glm). Reports both P and fdr values calculated by the Benjamini Hochberg correction.

ALDEx2m-package: Analysis of differential abundance taking sample variation into account

Description

Arguments

References

See Also

Examples