Description: Advances a novel adaptation of longitudinal k-means clustering
technique (Genolini et al. (2015) <doi:10.18637/jss.v065.i04>)
for grouping trajectories based on the similarities of their
long-term trends and determines the optimal solution based
on either the average silhouette width (Rousseeuw P. J. 1987)
or the Calinski-Harabatz criterion (Calinski and Harabatz (1974)
descriptive statistics and generate a visualisation of the
resulting groups, drawing methods from the 'ggplot2' library (Wickham H. (2016)
<doi:10.1007/978-3-319-24277-4>). The package also includes a number of
other useful functions for exploring and manipulating longitudinal
Imports: kml, stats, utils, dplyr, signal, Hmisc, grDevices, ggplot2,
Suggests: knitr, rmarkdown, digest, gdtools, kableExtra

Title: Arc Lengths of Statistical Functions
Description: Estimation, regression and classification using arc lengths.
Imports: alabama, pbdMPI, DEoptimR, Rcpp, stats
Author: M Theodor Loots <theodor.loots@up.ac.za>
Maintainer: M Theodor Loots <theodor.loots@up.ac.za>

Description: Estimation, regression and classification are redefined using a mathematically intractible measure, namely, the arc length.  Functions for parameter estimation, goodness-of-fit and regression (linear and non-linear) are provided.  These methods have been implemented with parallel computing in mind, and may therefore be executed on large clusters.

Description: Augmented Lagrangian Adaptive Barrier Minimization
Algorithm for optimizing smooth nonlinear objective functions
with constraints. Linear or nonlinear equality and inequality
Author: Ravi Varadhan (with contributions from Gabor Grothendieck)

Packaged: 2022-04-21 00:11:28 UTC; rvaradhan

Title: Immunoglobulin Clonal Lineage and Diversity Analysis
Description: Provides immunoglobulin (Ig) sequence lineage reconstruction,
diversity profiling, and amino acid property analysis.
Gupta and Vander Heiden, et al (2017) <doi:10.1093/bioinformatics/btv359>,
Stern, Yaari and Vander Heiden, et al (2014) <doi:10.1126/scitranslmed.3008879>.
Imports: dplyr (>= 0.5.0), graphics, grid, igraph (>= 1.0.0), lazyeval,
methods, progress, Rcpp (>= 0.12.12), readr, scales, seqinr,
Collate: 'Alakazam.R' 'AminoAcids.R' 'Classes.R' 'Core.R' 'Data.R'
'Diversity.R' 'Gene.R' 'Lineage.R' 'RcppExports.R' 'Sequence.R'