NEWS.md

In escamero/mirlyn: Multiple Iterations of Rarefying for Library Normalization

mirlyn 1.4.2

• Fix bug in mirl() introduced in v1.4.1

mirlyn 1.4.1

• Custom prefix name in asvrenamer.R

• Don't forget user distance/similarity metric in betamatPCA()

• Warn about dropped samples in mirl()

mirlyn 1.4.0

• Significant speed increase for internal function repotu_df(), which should help functions which use rarefied objects with many samples and reps

mirlyn 1.3.1

• Fixed plot_heat() function

mirlyn 1.3.0

• Speed ups to alphadivDF() and betamatPCA()

• Added set.seed and mc.cores options to alphacone()

mirlyn 1.2.2

• Fixed another typo in README

• Added an informative error message to betamatPCAvis() when the number of colours and/or reps is incorrect

mirlyn 1.2.1

• Fixed typos in README

• Fixed rng seed handling in rarefy_whole_rep() so that it is different when using multiple cores (note that this means the function is not reproducible between this version and previous ones)

mirlyn 1.2.0

• Added a mc.cores option to mirl() (note that this change necessitated altering the behaviour of setting the random seed, so calls to the mirl() function will differ from 1.1.0 to 1.2.0)

• Fixed broken examples for alphawichVis(), alphaconeVis()

• General code, documentation cleanup

mirlyn 1.1.0

• New function get_asv_table(): create an ASV table with abundance and taxonomy

• New function phyloseq_to_df(): create a data.frame containing abundance, taxonomy and metadata from phyloseq objects

• New function plot_heat(): create heatmaps visualizing relative abundance of a taxonmic group

• New function randomseqsig(): determine whether a taxonomic group of interest is over/under-represented

escamero/mirlyn documentation built on Aug. 6, 2023, 9:30 p.m.