Provides six variants of two-way correspondence analysis (ca):
   simple ca, singly ordered ca, doubly ordered ca, non symmetrical ca,
   singly ordered non symmetrical ca, and doubly ordered non symmetrical
   ca.

Cluster analysis is performed using pairwise distance information and a random partition distribution. The method is
             implemented for two random partition distributions. It draws samples and then obtains and plots clustering estimates.
             An implementation of a selection algorithm is provided for the mass parameter of the partition distribution. Since 
             pairwise distances are the principal input to this procedure, it is most comparable to the hierarchical and k-medoids
             clustering methods. The method is Dahl, Andros, Carter (2022+) <doi:10.1002/sam.11602>.

Implements algorithms for analyzing Cayley graphs of permutation groups,
    with a focus on the TopSpin puzzle and similar permutation-based combinatorial 
    puzzles. Provides methods for cycle detection, state space exploration, and 
    finding optimal operation sequences in permutation groups generated by shift 
    and reverse operations.

Provides functions for hit gene identification and quantification of sgRNA (single-guided RNA) abundances for CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) pooled screen data analysis. 
  Details are in Jeong et al. (2019) <doi:10.1101/gr.245571.118> and Baggerly et al. (2003) <doi:10.1093/bioinformatics/btg173>.

Implements clustering techniques such as Proximus and Rock, utility functions for efficient computation of cross distances and data manipulation.

Simulation of the stochastic 3D structure model for the nanoporous binder-conductive additive phase in battery cathodes introduced in P. Gräfensteiner, M. Osenberg, A. Hilger, N. Bohn, J. R. Binder, I. Manke, V. Schmidt, M. Neumann (2024) <doi:10.48550/arXiv.2409.11080>. The model is developed for a binder-conductive additive phase of consisting of carbon black, polyvinylidene difluoride binder and graphite particles. For its stochastic 3D modeling, a three-step procedure based on methods from stochastic geometry is used. First, the graphite particles are described by a Boolean model with ellipsoidal grains. Second, the mixture of carbon black and binder is modeled by an excursion set of a Gaussian random field in the complement of the graphite particles. Third, large pore regions within the mixture of carbon black and binder are described by a Boolean model with spherical grains.