k3ylabs/cosoco-image-dataset huggingface dataset:
Package: r-bioc-scater (1.22.0+ds-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/scater/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-singlecellexperiment, r-bioc-scuttle, r-cran-ggplot2, r-cran-gridextra, r-cran-matrix, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-summarizedexperiment, r-bioc-delayedarray, r-bioc-delayedmatrixstats, r-bioc-beachmat, r-bioc-biocneighbors, r-bioc-biocsingular, r-bioc-biocparallel, r-cran-rlang, r-cran-ggbeeswarm, r-cran-viridis, r-cran-rtsne, r-cran-rcolorbrewer, r-cran-ggrepel
Description:  Single-Cell Analysis Toolkit for Gene Expression Data in R A collection of tools for doing various analyses of single-cell RNA-seq gene expression data, with a focus on quality control and visualization.
Package: r-bioc-scran (1.22.1+dfsg-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/scran/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-singlecellexperiment, r-bioc-scuttle, r-bioc-summarizedexperiment, r-bioc-s4vectors, r-bioc-biocgenerics, r-bioc-biocparallel, r-cran-rcpp, r-cran-matrix, r-bioc-edger, r-bioc-limma, r-cran-igraph, r-cran-statmod, r-bioc-delayedarray, r-bioc-delayedmatrixstats, r-bioc-biocsingular, r-bioc-bluster, r-bioc-metapod, r-cran-dqrng, r-bioc-beachmat, r-cran-bh, libc6 (>= 2.29), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 11)
Description:  BioConductor methods for single-cell RNA-Seq data analysis Implements functions for low-level analyses of single-cell RNA-seq data. Methods are provided for normalization of cell-specific biases, assignment of cell cycle phase, detection of highly variable and significantly correlated genes, identification of marker genes, and other common tasks in routine single-cell analysis workflows.
Package: r-bioc-scrnaseq (2.8.0+ds-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/data/experiment/scRNAseq/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-singlecellexperiment, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-genomicranges, r-bioc-summarizedexperiment, r-bioc-experimenthub, r-bioc-annotationhub, r-bioc-annotationdbi, r-bioc-ensembldb, r-bioc-genomicfeatures
Description:  Collection of Public Single-Cell RNA-Seq Datasets Gene-level counts for a collection of public scRNA-seq datasets, provided as SingleCellExperiment objects with cell- and gene-level metadata.
Package: r-bioc-scuttle (1.4.0+dfsg-3)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/scuttle/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-singlecellexperiment, r-cran-matrix, r-cran-rcpp, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-biocparallel, r-bioc-genomicranges, r-bioc-summarizedexperiment, r-bioc-delayedarray, r-bioc-delayedmatrixstats, r-bioc-beachmat, libc6 (>= 2.14), libgcc-s1 (>= 3.0), liblapack3 | liblapack.so.3, libstdc++6 (>= 11)
Description:  BioConductor single-cell RNA-Seq analysis utilities Provides basic utility functions for performing single-cell analyses, focusing on simple normalization, quality control and data transformations. Also provides some helper functions to assist development of other packages.
Package: r-bioc-seqlogo (1.60.0+dfsg-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/seqLogo/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14
Description:  GNU R sequence logos for DNA sequence alignments seqLogo takes the position weight matrix of a DNA sequence motif and plots the corresponding sequence logo as introduced by Schneider and Stephens (1990).
Package: r-bioc-shortread (1.52.0-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/ShortRead/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-biocgenerics (>= 0.23.3), r-bioc-biocparallel, r-bioc-biostrings (>= 2.47.6), r-bioc-rsamtools (>= 1.31.2), r-bioc-genomicalignments (>= 1.15.6), r-bioc-biobase, r-bioc-s4vectors (>= 0.17.25), r-bioc-iranges (>= 2.13.12), r-bioc-genomeinfodb (>= 1.15.2), r-bioc-genomicranges (>= 1.31.8), r-cran-hwriter, r-bioc-zlibbioc, r-cran-lattice, r-cran-latticeextra, r-bioc-xvector, r-bioc-rhtslib, libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 11), zlib1g (>= 1:1.1.4)
Description:  GNU R classes and methods for high-throughput short-read sequencing data This BioConductor module is a package for input, quality assessment, manipulation and output of high-throughput sequencing data. ShortRead is provided in the R and Bioconductor environments, allowing ready access to additional facilities for advanced statistical analysis, data transformation, visualization and integration with diverse genomic resources.
Package: r-bioc-singlecellexperiment (1.16.0+ds-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/SingleCellExperiment/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-summarizedexperiment, r-bioc-s4vectors, r-bioc-biocgenerics, r-bioc-genomicranges, r-bioc-delayedarray
Description:  S4 Classes for Single Cell Data Defines a S4 class for storing data from single-cell experiments. This includes specialized methods to store and retrieve spike-in information, dimensionality reduction coordinates and size factors for each cell, along with the usual metadata for genes and libraries.
Package: r-bioc-singler (1.8.1+ds-2)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/SingleR/
Depends: r-base-core (>= 4.1.2-1ubuntu2), r-api-4.0, r-api-bioc-3.14, r-bioc-summarizedexperiment, r-cran-matrix, r-bioc-s4vectors, r-bioc-delayedarray, r-bioc-delayedmatrixstats, r-bioc-biocneighbors, r-bioc-biocparallel, r-bioc-biocsingular, r-cran-rcpp, r-bioc-beachmat, libc6 (>= 2.14), libgcc-s1 (>= 3.0), libstdc++6 (>= 11)
Description:  BioConductor reference-based single-cell RNA-Seq annotation Performs unbiased cell type recognition from single-cell RNA sequencing data, by leveraging reference transcriptomic datasets of pure cell types to infer the cell of origin of each single cell independently.
Package: r-bioc-snpstats (1.44.0+dfsg-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/snpStats/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-cran-survival, r-cran-matrix, r-bioc-biocgenerics, r-bioc-zlibbioc, libc6 (>= 2.14), zlib1g (>= 1:1.1.4)
Description:  BioConductor SnpMatrix and XSnpMatrix classes and methods This BioConductor package provides R functions to work with SnpMatrix and XSnpMatrix classes and methods. . SnpStats arose out of the need to store, and analyse, SNP genotype data in which subjects cannot be assigned to the three possible genotypes with certainty. This necessitated a change in the way in which data are stored internally, although snpStats can still handle conventionally called genotype data stored in the original snpMatrix storage mode. snpStats currently lacks some facilities which were present in snpMatrix (although, hopefully, the important gaps will soon be filled) but it also includes several important new facilities.
Package: r-bioc-sparsematrixstats (1.6.0+dfsg-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/sparseMatrixStats/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-matrixgenerics (>= 1.5.3), r-cran-rcpp, r-cran-matrix, r-cran-matrixstats (>= 0.60.0), libc6 (>= 2.29), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2)
Description:  BioConductor summary statistics for rows and columns of sparse matrices High performance functions for row and column operations on sparse matrices. For example: col / rowMeans2, col / rowMedians, col / rowVars etc. Currently, the optimizations are limited to data in the column sparse format. This package is inspired by the matrixStats package by Henrik Bengtsson.
Package: r-bioc-stringdb (2.6.1-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/STRINGdb/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-cran-png, r-cran-sqldf, r-cran-plyr, r-cran-igraph, r-cran-rcurl, r-cran-rcolorbrewer, r-cran-gplots, r-cran-hash, r-cran-plotrix
Description:  Search Tool for the Retrieval of Interacting proteins database The STRINGdb package provides a R interface to the STRING protein-protein interactions database. . The original database is accessible on https://www.string-db.org.
Package: r-bioc-structuralvariantannotation (1.10.1+ds-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/StructuralVariantAnnotation/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-genomicranges, r-bioc-rtracklayer, r-bioc-variantannotation, r-bioc-biocgenerics, r-cran-assertthat, r-bioc-biostrings, r-cran-stringr, r-cran-dplyr, r-cran-rlang, r-bioc-genomicfeatures, r-bioc-iranges, r-bioc-s4vectors, r-bioc-summarizedexperiment, r-bioc-genomeinfodb
Description:  Variant annotations for structural variants StructuralVariantAnnotation contains useful helper functions for dealing with structural variants in VCF format. The packages contains functions for parsing VCFs from a number of popular callers as well as functions for dealing with breakpoints involving two separate genomic loci encoded as GRanges objects.
Package: r-bioc-summarizedexperiment (1.24.0+dfsg-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/SummarizedExperiment/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-matrixgenerics (>= 1.1.3), r-bioc-genomicranges (>= 1.41.5), r-bioc-biobase, r-cran-matrix, r-bioc-biocgenerics (>= 0.37.0), r-bioc-s4vectors (>= 0.27.12), r-bioc-iranges (>= 2.23.9), r-bioc-genomeinfodb (>= 1.13.1), r-bioc-delayedarray (>= 0.15.10)
Description:  BioConductor assay container The SummarizedExperiment container contains one or more assays, each represented by a matrix-like object of numeric or other mode. The rows typically represent genomic ranges of interest and the columns represent samples.
Package: r-bioc-sva (3.42.0-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/sva/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-cran-mgcv, r-bioc-genefilter, r-bioc-biocparallel, r-cran-matrixstats, r-bioc-limma, r-bioc-edger
Description:  GNU R Surrogate Variable Analysis The sva package contains functions for removing batch effects and other unwanted variation in high-throughput experiment. Specifically, the sva package contains functions for the identifying and building surrogate variables for high-dimensional data sets. Surrogate variables are covariates constructed directly from high-dimensional data (like gene expression/RNA sequencing/methylation/brain imaging data) that can be used in subsequent analyses to adjust for unknown, unmodeled, or latent sources of noise. The sva package can be used to remove artifacts in three ways: (1) identifying and estimating surrogate variables for unknown sources of variation in high-throughput experiments (Leek and Storey 2007 PLoS Genetics,2008 PNAS), (2) directly removing known batch effects using ComBat (Johnson et al. 2007 Biostatistics) and (3) removing batch effects with known control probes (Leek 2014 biorXiv). Removing batch effects and using surrogate variables in differential expression analysis have been shown to reduce dependence, stabilize error rate estimates, and improve reproducibility, see (Leek and Storey 2007 PLoS Genetics, 2008 PNAS or Leek et al. 2011 Nat. Reviews Genetics).
Package: r-bioc-tcgabiolinks (2.22.4+dfsg-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/TCGAbiolinks/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-cran-downloader (>= 0.4), r-bioc-biomart, r-cran-dplyr, r-cran-tibble, r-bioc-genomicranges, r-cran-xml (>= 3.98.0), r-cran-data.table, r-cran-jsonlite (>= 1.0.0), r-cran-plyr, r-cran-knitr, r-cran-ggplot2, r-cran-stringr (>= 1.0.0), r-bioc-iranges, r-cran-rvest (>= 0.3.0), r-bioc-s4vectors, r-cran-r.utils, r-bioc-summarizedexperiment (>= 1.4.0), r-bioc-tcgabiolinksgui.data, r-cran-readr, r-cran-tidyr, r-cran-purrr, r-cran-xml2, r-cran-httr (>= 1.2.1)
Description:  GNU R/Bioconductor package for integrative analysis with GDC data The aim of TCGAbiolinks is:  1) facilitate the GDC open-access data retrieval,  2) prepare the data using the appropriate pre-processing strategies,  3) provide the means to carry out different standard analyses and  4) to easily reproduce earlier research results. In more detail, the package provides multiple methods for analysis (e.g., differential expression analysis, identifying differentially methylated regions) and methods for visualization (e.g., survival plots, volcano plots, starburst plots) in order to easily develop complete analysis pipelines.
Package: r-bioc-tcgabiolinksgui.data (1.14.0+dfsg-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/data/experiment/TCGAbiolinksGUI.data/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14
Description:  Data for the TCGAbiolinksGUI package Supporting data for the GNU R TCGAbiolinksGUI package. This package contains the following objects:  - For gene annotation:    - gene.location.hg38    - gene.location.hg19  - For Glioma Classifier function:    - glioma.gcimp.model    - glioma.idh.model    - glioma.idhmut.model    - glioma.idhwt.model  - For linkedOmics database:    - linkedOmicsData
Package: r-bioc-tfbstools (1.32.0+dfsg-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/TFBSTools/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-biobase (>= 2.28), r-bioc-biostrings (>= 2.36.4), r-bioc-biocgenerics (>= 0.14.0), r-bioc-biocparallel (>= 1.2.21), r-bioc-bsgenome (>= 1.36.3), r-cran-catools (>= 1.17.1), r-bioc-cner (>= 1.4.0), r-bioc-dirichletmultinomial (>= 1.10.0), r-bioc-genomeinfodb (>= 1.6.1), r-bioc-genomicranges (>= 1.20.6), r-cran-gtools (>= 3.5.0), r-bioc-iranges (>= 2.2.7), r-cran-dbi (>= 0.6), r-cran-rsqlite (>= 1.0.0), r-bioc-rtracklayer (>= 1.28.10), r-bioc-seqlogo (>= 1.34.0), r-bioc-s4vectors (>= 0.9.25), r-cran-tfmpvalue (>= 0.0.5), r-cran-xml (>= 3.98-1.3), r-bioc-xvector (>= 0.8.0), libc6 (>= 2.4)
Description:  GNU R Transcription Factor Binding Site (TFBS) Analysis TFBSTools is a package for the analysis and manipulation of transcription factor binding sites. It includes matrices conversion between Position Frequency Matirx (PFM), Position Weight Matirx (PWM) and Information Content Matrix (ICM). It can also scan putative TFBS from sequence/alignment, query JASPAR database and provides a wrapper of de novo motif discovery software.
Package: r-bioc-titancna (1.32.0-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/TitanCNA/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-biocgenerics (>= 0.31.6), r-bioc-iranges (>= 2.6.1), r-bioc-genomicranges (>= 1.24.3), r-bioc-variantannotation (>= 1.18.7), r-cran-foreach (>= 1.4.3), r-bioc-genomeinfodb (>= 1.8.7), r-cran-data.table (>= 1.10.4), r-cran-dplyr (>= 0.5.0), libc6 (>= 2.14)
Description:  Subclonal copy number and LOH prediction from whole genome sequencing Hidden Markov model to segment and predict regions of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH), and estimate cellular prevalence of clonal clusters in tumour whole genome sequencing data.
Package: r-bioc-tximeta (1.12.4+dfsg-2)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/tximeta/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-summarizedexperiment, r-bioc-tximport, r-cran-jsonlite, r-bioc-s4vectors, r-bioc-iranges, r-bioc-genomicranges, r-bioc-annotationdbi, r-bioc-genomicfeatures, r-bioc-ensembldb, r-bioc-biocfilecache, r-bioc-annotationhub, r-bioc-biostrings, r-cran-tibble, r-bioc-genomeinfodb, r-cran-matrix
Description:  Transcript Quantification Import with Automatic Metadata Transcript quantification import from Salmon and alevin with automatic attachment of transcript ranges and release information, and other associated metadata. De novo transcriptomes can be linked to the appropriate sources with linkedTxomes and shared for computational reproducibility.
Package: r-bioc-tximport (1.22.0+dfsg-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/tximport/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14
Description:  transcript-level estimates for biological sequencing Imports transcript-level abundance, estimated counts and transcript lengths, and summarizes into matrices for use with downstream gene-level analysis packages. Average transcript length, weighted by sample-specific transcript abundance estimates, is provided as a matrix which can be used as an offset for different expression of gene-level counts.
Package: r-bioc-tximportdata (1.22.0+ds-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/release/data/experiment/html/tximportData.html
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14
Description:  GNU R various transcript abundance quantifiers This package provides the output of running various transcript abundance quantifiers on a set of 6 RNA-seq samples from the GEUVADIS project. The quantifiers were Cufflinks, RSEM, kallisto, Salmon and Sailfish. For details on version numbers, sample information, and details on calls, see the package vignette.
Package: r-bioc-variantannotation (1.40.0-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/VariantAnnotation/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-biocgenerics (>= 0.37.0), r-bioc-matrixgenerics, r-bioc-genomeinfodb (>= 1.15.2), r-bioc-genomicranges (>= 1.41.5), r-bioc-summarizedexperiment (>= 1.19.5), r-bioc-rsamtools (>= 1.99.0), r-cran-dbi, r-bioc-zlibbioc, r-bioc-biobase, r-bioc-s4vectors (>= 0.27.12), r-bioc-iranges (>= 2.23.9), r-bioc-xvector (>= 0.29.2), r-bioc-biostrings (>= 2.57.2), r-bioc-annotationdbi (>= 1.27.9), r-bioc-rtracklayer (>= 1.39.7), r-bioc-bsgenome (>= 1.47.3), r-bioc-genomicfeatures (>= 1.31.3), r-bioc-rhtslib, libc6 (>= 2.34), libcurl4 (>= 7.18.0)
Description:  BioConductor annotation of genetic variants This BioConductor package provides R functions to annotate variants, compute amino acid coding changess and to predict coding outcomes.
Package: r-bioc-wrench (1.12.0+dfsg-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/Wrench/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-limma, r-cran-matrixstats, r-cran-locfit
Description:  GNU R wrench normalization for sparse count data Wrench is a package for normalization sparse genomic count data, like that arising from 16s metagenomic surveys.
Package: r-bioc-xvector (0.34.0-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/XVector/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, r-bioc-biocgenerics (>= 0.37.0), r-bioc-s4vectors (>= 0.27.12), r-bioc-iranges (>= 2.23.9), r-bioc-zlibbioc, libc6 (>= 2.14), zlib1g (>= 1:1.1.4)
Description:  BioConductor representation and manpulation of external sequences This BioConductor package provides memory efficient S4 classes for storing sequences "externally" (behind an R external pointer, or on disk).
Package: r-bioc-zlibbioc (1.40.0+dfsg-1)
Section: universe/gnu-r
Homepage: https://bioconductor.org/packages/zlibbioc/
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-api-bioc-3.14, zlib1g-dev
Description:  (Virtual) zlibbioc Bioconductor package zlibbioc provides the zlib library to the Bioconductor environment. This is useless on Debian because zlib is packaged. So, to avoid to patch all Bioconductor packages which required zlibbioc, zlibbioc is packaged as an empty shell depending on zlib1g-dev.
Package: r-cran-abind (1.4-5-2)
Section: universe/math
Homepage: https://cran.r-project.org/package=abind
Depends: r-base-core (>= 4.0.0.20200528-1), r-api-4.0
Description:  GNU R abind multi-dimensional array combination function This package provides the abind function, a generalization of the cbind and rbind function in the R base package. The abind function takes a sequence of vectors, matrices, or arrays and produces a single array of the same or higher dimension.
Package: r-cran-acepack (1.4.1-2build3)
Section: universe/gnu-r
Depends: libc6 (>= 2.29), r-base-core (>= 4.0.0.20200528-1), r-api-4.0
Description:  GNU R package for regression transformations This package provides the functions ace() and avas() for GNU R which can be used to select regression transformations.
Package: r-cran-actuar (3.2-1-1)
Section: universe/gnu-r
Homepage: https://cran.r-project.org/package=actuar
Depends: r-base-core (>= 4.1.2-1ubuntu1), r-api-4.0, r-cran-expint, libblas3 | libblas.so.3, libc6 (>= 2.29), liblapack3 | liblapack.so.3
Description:  GNU R actuarial functions and heavy tailed distributions Functions and data sets for actuarial science: modeling of loss distributions; risk theory and ruin theory; simulation of compound models, discrete mixtures and compound hierarchical models; credibility theory. Support for many additional probability distributions to model insurance loss amounts and loss frequency: 19 continuous heavy tailed distributions; the Poisson-inverse Gaussian discrete distribution; zero-truncated and zero-modified extensions of the standard discrete distributions. Support for phase-type distributions commonly used to compute ruin probabilities.
Package: r-cran-ade4 (1.7-18-1)
Section: universe/gnu-r
Homepage: https://cran.r-project.org/package=ade4
Depends: r-base-core (>= 4.1.1-2), r-api-4.0, r-cran-mass, r-cran-pixmap, r-cran-sp, libc6 (>= 2.29), liblapack3 | liblapack.so.3
Description:  GNU R analysis of ecological data This GNU R package allows analysis of ecological data and contains exploratory and euclidean methods in environmental sciences. . It supports multivariate data analysis and graphical display.
Package: r-cran-adegenet (2.1.5-1)
Section: universe/gnu-r
Homepage: https://cran.r-project.org/package=adegenet
Depends: r-base-core (>= 4.1.1-2), r-api-4.0, r-cran-ade4, r-cran-mass, r-cran-igraph, r-cran-ape, r-cran-shiny, r-cran-ggplot2, r-cran-seqinr, r-cran-boot, r-cran-reshape2, r-cran-dplyr (>= 0.4.1), r-cran-vegan, libc6 (>= 2.4)
Description:  GNU R exploratory analysis of genetic and genomic data Toolset for the exploration of genetic and genomic data. Adegenet provides formal (S4) classes for storing and handling various genetic data, including genetic markers with varying ploidy and hierarchical population structure ('genind' class), alleles counts by populations ('genpop'), and genome-wide SNP data ('genlight'). It also implements original multivariate methods (DAPC, sPCA), graphics, statistical tests, simulation tools, distance and similarity measures, and several spatial methods. A range of both empirical and simulated datasets is also provided to illustrate various methods.
Package: r-cran-adegraphics (1.0-16-1)
Section: universe/gnu-r
Homepage: https://cran.r-project.org/package=adegraphics
Depends: r-base-core (>= 4.1.1-2), r-api-4.0, r-cran-ade4 (>= 1.7-13), r-cran-kernsmooth, r-cran-lattice, r-cran-latticeextra, r-cran-rcolorbrewer, r-cran-sp (>= 1.1-1)
Description:  GNU R lattice-based package for the representation of multivariate data This GNU R package provides graphical functionalities for the representation of multivariate data. It is a complete re-implementation of the functions available in the 'ade4' package.
Package: r-cran-adephylo (1.1-11-4)
Section: universe/gnu-r
Homepage: https://cran.r-project.org/package=adephylo
Depends: r-base-core (>= 4.0.2-1build1), r-api-4.0, r-cran-ade4 (>= 1.7-10), r-cran-phylobase, r-cran-ape, r-cran-adegenet, libc6 (>= 2.4)
Description:  GNU R exploratory analyses for the phylogenetic comparative method This GNU R package provides multivariate tools to analyze comparative data, i.e. a phylogeny and some traits measured for each taxa.