ann                     Cell type annotations for data extracted from a
                        publication by Yan et al.
EuclSqNorm              The Euclidean Squared Norm of each column of a
                        matrix is computed and the whole result is
                        returned as a vector. Used as part of the
                        approx. calculations of the cosine similarity
                        between the query and the reference.
getSankey               Plot Sankey diagram comparing two clusterings
indexCell               Create an index for a dataset to enable fast
                        approximate nearest neighbour search
indexCluster            Create a precomputed Reference
NN                      Main nearest neighbour calculation function.
                        Used on the first reference dataset. Returns a
                        list of three objects: 1) the cell indices of
                        the w nearest neighbours 2) the corresponding
                        approx. cosine similarities
normalise               Normalises each column of a matrix
scmapCell               For each cell in a query dataset, we search for
                        the nearest neighbours by cosine distance
                        within a collection of reference datasets.
scmapCell2Cluster       Approximate k-NN cell-type classification using
                        scfinemap
scmapCluster            scmap main function
selectFeatures          Find the most informative features
                        (genes/transcripts) for projection
setFeatures             Set the most important features
                        (genes/transcripts) for projection
subdistsmult            Computes the dot product between the
                        subcentroids from the indexed reference and the
                        subvectors of an element of the query dataset.
                        Returns an M by k matrix. Used as an
                        intermediate step (in NNfirst and NNmult) for
                        calculating an approximation of the cosine
                        similarity between the query and the reference.
yan                     Single cell RNA-Seq data extracted from a
                        publication by Yan et al.
