This package provides functions common to members of the SISTM team.

Instead of nesting function calls, annotate and transform functions using "#." comments.

colorectal cancer mRNA and miRNA on 18 cell lines.

Inference of Genetic Variants Driving Cellullar Phenotypes by the DIGGIT algorithm.

MUSCLE performs multiple sequence alignments of nucleotide or amino acid sequences.

This is the core package for the automated analysis of Affymetrix arrays.

This package provides a pipeline for the analysis of GRO-seq data.

This package provides basic features for the automated analysis of Affymetrix arrays.

This package performs a fast Wilcoxon rank sum test and auROC analysis.

This package provides utilities for secure password hashing via the argon2 algorithm.

This package provides functions used for local regression, likelihood and density estimation.

This package provides a utility for R to parse a bibtex file.

This package provides tools to calculate the Earth Mover's Distance (EMD).

This package provides miscellaneous helper functions for the development of R packages.

The Snell scoring procedure, implemented in R. This procedure was first described by E.J Snell (1964) <doi:10.2307/2528498> and was later used by Tong et al (1977) <doi:10.4141/cjas77-001> in dairy.

This package contains convenience functions for working with spatial data across multiple UTM zones, raster-vector operations common in the analysis of conflict data, and converting degrees, minutes, and seconds latitude and longitude coordinates to decimal degrees.

Aims to create a single isolated Miniconda and Python environment for reproducible pipeline scripts. The package provides utilities to run system command within the conda environment, making it easy to install, launch, manage, and stop Jupyter-lab'.

Fits an Ising model to a binary dataset using L1 regularized logistic regression and extended BIC. Also includes a fast lasso logistic regression function for high-dimensional problems. Uses the libLBFGS optimization library by Naoaki Okazaki.

The package includes functions to build restriction enzyme cut site (RECS) map, distribute mapped sequences on the map with five different approaches, find enriched/depleted RECSs for a sample, and identify differentially enriched/depleted RECSs between samples.

This package provides access to phyloinformatic data in NeXML format. The package should add new functionality to R such as the possibility to manipulate NeXML objects in more various and refined way and compatibility with ape objects.

This is a deprecated package for accessing huge amounts of data. Cross-platform alternatives are the following packages: bigmemory (CRAN), ff (CRAN), or BufferedMatrix (Bioconductor). The main usage of it was inside the aroma.affymetrix package.

This package implements sample size and power calculation methods with a focus on balance and fairness in study design, inspired by the Zoroastrian deity Rashnu, the judge who weighs truth. Supports survival analysis and various hypothesis testing frameworks.

This package provides functions for the determination of optimally robust influence curves and estimators in case of normal location and/or scale (see Chapter 8 in Kohl (2005) <https://epub.uni-bayreuth.de/839/2/DissMKohl.pdf>).

This package provides a machine learning algorithm that merges satellite and ground precipitation data using Random Forest for spatial prediction, residual modeling for bias correction, and quantile mapping for adjustment, ensuring accurate estimates across temporal scales and regions.