Description: A computing tool is developed to automated identify somatic mutation-driven immune cells. The operation modes including: i) inferring the relative abundance matrix of tumor-infiltrating immune cells and integrating it with a particular gene mutation status, ii) detecting differential immune cells with respect to the gene mutation status and converting the abundance matrix of significant differential immune cell into two binary matrices (one for up-regulated and one for down-regulated), iii) identifying somatic mutation-driven immune cells by comparing the gene mutation status with each immune cell in the binary matrices across all samples, and iv) visualization of immune cell abundance of samples in different mutation status..
maftools, grDevices, survival, survminer, MASS, pracma, stats,

Title: R functions and data from Chapter 5 of 'Statistical Methods for
Description: R functions and data from Chapter 5 of 'Statistical
Methods for Financial Engineering', by Bruno Remillard, CRC

Title: Filtering Algorithms for the State Space Model on the Stiefel
Description: Provides the filtering algorithms for the state space model on the Stiefel manifold.

Title: Filtering Algorithms for the State Space Models on the Stiefel
Description: Provides the filtering algorithms for the state space models on the Stiefel manifold as well as the corresponding sampling algorithms for uniform, vector Langevin-Bingham and matrix Langevin-Bingham distributions on the Stiefel manifold.

Title: Companion to \emph{Statistical Modelling in R}
Author: Murray Aitkin, Brian Francis, John Hinde, Ross Darnell
Suggests: lattice, foreign, gdata, car, dglm, gnm, MASS, npmlreg,
Description: This package accompanies Aitkin et al, Statistical
Modelling in R, OUP, 2009. The package contains some functions

Title: Companion to Statistical Modelling in R

Title: Data Structure and Manipulations Tool for Host and Viral
Authors@R: c(person("Jean-Francois", "Rey", role = c("aut", "cre"), email = "jean-francois.rey@inra.fr"))
Description: Statistical Methods for Inferring Transmissions of Infectious Diseases from deep sequencing data (SMITID).
It allow sequence-space-time host and viral population data storage, indexation and querying.
Depends: methods, utils, grDevices (>= 3.0.0), graphics (>= 3.0.0), R
Imports: ggplot2, sf (>= 0.6.3), stats (>= 3.0.2), Biostrings (>=
ImportsNote: BioC (>= 3.0), Recommended: Biostrings