See also
What's new in version 10
New
features
Machine learning
Improved cross-talk detection
Novel alpha diversity metrics
Octave plots for visualizing alpha diversity
Statistical significance of
diversity differences between groups
Cross-validation by identity (CVI)
New commands
calc_lcr_probs Calculate
lowest common rank probabilities
cluster_tree Construct clusters from
tree using distance cutoff
distmx_split_identity Split distance matrix into test/training pair
for CVI
fastx_syncpairs Sort forward and reverse reads into the same order
fastx_trim_primer Remove
primer-binding sequence from FASTx file
forest_classify Classify
data using random forest
forest_train Train random forest classifier
nbc_tax Predict taxonomy using
RDP Naive Bayesian Classifier algorithm
otutab_binary Convert OTU
table with counts to presence(1) / absence(0)
otutab_forest_classify
Classify samples using random forest
otutab_core Identify core microbiome in OTU table
otutab_forest_train Train
random forest classifier on OTU table
otutab_otus Extract OTU labels from OTU table
otutab_rare Sub-sample OTU table to
same number of reads per sample
otutab_samples Extract sample labels from OTU table
otutab_select
Identify OTUs which are informative (correlate with metadata)
otutab_xtalk Identify
cross-talk using improved algorithm (UNCROSS2)
search_pcr2 In-silico PCR,
search for matches to primer pair
subtree
Extracts subtree under given node
tabbed2otutab Convert read mapping file (read+OTU) to OTU
table
tree_subset
Extract subset of tree for given set of leaf labels