Exploration and retrieval of whole-metagenome sequencing samples

Supporting files for generating simulated data using metaSim

• use taxon profile given in bioinformaticsRevision.mprf
• use abundance values given in -label-abundance files
• additional details available in paper

Matlab code for reproducing figures

• run runPlots.m to reproduce figures in the paper
• check for dependencies in configPaths.m
• each _.mat file contains 3 matrices for specific k-mer (K), unspecified k-mer (S), and FIGfam (F)
• dimensions of recordK - (3 matrices), (k-mer 12 21 30), (entropies), (not needed), (query)
• dimensions of recordS - (3 matrices), (entropies), (not needed), (query)
• dimensions of recordF - (3 matrices), (entropies), (length 21 30), (query)
• each figure*randomTest.mat file contains results of the random test
• abundanceLabel contains abundance values estimated using MetaPhlAn
• More descriptions available within the code

Comments

• synthetic data names: bioRev - HIGH-C, bioRev-2 - HIGH-VAR, bioRev-3 - LOW-C, bioRev-4 - MIXED-C