Man pages for mikemc/metacal
Bias estimation and calibration for metagenomics experiments
| anorm | Aitchison norm of x |
| as_matrix | Coerce a (wide) data frame to a matrix |
| bootrep_center | Generate bootstrap replicates of the sample center |
| build_matrix | Create a matrix from columns of a tidy data frame |
| calibrate | Calibrate a relative-abundance matrix by a bias vector |
| center | Compute the center (compositional mean) of a set of... |
| center_elts | Geometrically center the elements of x |
| close_elts | Close the elements of x to proportions |
| clr | Compute the centered log-ratio transform of x |
| compute_ratios | Compute taxon ratios from a tidy data frame |
| cooccurrence | Taxon co-occurrence network |
| corner | Objects exported from other packages |
| estimate_bias | Estimate bias from control measurements |
| gm | Geometric (multiplicative) version of the function f |
| gm_abs | Geometric absolute value of x |
| gm_mean | Geometric mean of x |
| gm_range | Geometric range of x |
| gm_sd | Geometric standard deviation of x |
| import_phyloseq | Import phyloseq classes and functions |
| log_center_proj | Compute the log center by the projection method |
| log_center_rss | Compute the log center by numerical optimization |
| logit | Logit (log-odds) of the probability vector x |
| mean_efficiency | Compute sample mean efficiencies |
| metacal-package | metacal: Bias estimation and calibration for metagenomics... |
| mutate_by | Mutate within groups |
| odds | Odds of the probability vector x |
| pairwise_ratios | Pairwise ratios of vector elements and matrix rows or columns |
| perturb | Compositionally perturb a relative-abundance matrix |
| proj_mat | Projection matrix P_M |
| xydist | Distance or dissimilarity between relative abundance vectors... |
