| alientrimmer | 0.4.2 | Trimmer of contaminant oligonucleotide sequences such as primers and adapters | Mar 25, 2025 | GPLv2 |
| meteor | 2.0.18 | Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. | Mar 25, 2025 | GPL (>= 3) |
| r-biomformatshaman | 0.1 | This is an R package for interfacing with the BIOM format. This package includes basic tools for reading biom-format files, accessing and subsetting data tables from a biom object (which is more complex than a single table), as well as limited support for writing a biom-object back to a biom-format file. The design of this API is intended to match the python API and other tools included with the biom-format project, but with a decidedly "R flavor" that should be familiar to R users. This includes S4 classes and methods, as well as extensions of common core functions/methods. | Mar 25, 2025 | GPL-2 |
| r-d3heatmap | 0.6.1.3 | Create interactive heat maps that are usable from the R console, in the 'RStudio' viewer pane, in 'R Markdown' documents, and in 'Shiny' apps. Hover the mouse pointer over a cell to show details, drag a rectangle to zoom, and click row/column labels to highlight. | Mar 25, 2025 | GPL-3 |
| r-d3vennr | 0.1 | Make interactive d3.js Venn/Euler diagrams in R with the convenience and infrastructure of an htmlwidget. | Mar 25, 2025 | MIT |
| r-deseq2shaman | 1.6.3 | Estimate variance-mean dependence in count data from high-throughput sequencing assays and test for differential expression based on a model using the negative binomial distribution. | Mar 25, 2025 | LGPL (>= 3) |
| r-gunifrac | 1.1 | Generalized UniFrac distances for comparing microbial communities. Permutational multivariate analysis of variance using multiple distance matrices. | Mar 25, 2025 | GPL-3 |
| r-kronar | 0.9 | Draw krona graph. | Mar 25, 2025 | GPL-3 |
| r-philentropy | 0.3.0 | Computes 46 optimized distance and similarity measures for comparing probability functions (Drost (2018) <doi:10.21105/joss.00765>). These comparisons between probability functions have their foundations in a broad range of scientific disciplines from mathematics to ecology. The aim of this package is to provide a core framework for clustering, classification, statistical inference, goodness-of-fit, non-parametric statistics, information theory, and machine learning tasks that are based on comparing univariate or multivariate probability functions. | Mar 25, 2025 | GPL-2 |
| r-phylotreemetar | 0.9 | Draw phylogeny. | Mar 25, 2025 | GPL-3 |
| r-piper | 0.6.1.3 | Provides various styles of function chaining methods: Pipe operator, Pipe object, and pipeline function, each representing a distinct pipeline model yet sharing almost a common set of features: A value can be piped to the first unnamed argument of a function and to dot symbol in an enclosed expression. The syntax is designed to make the pipeline more readable and friendly to a wide range of operations. | Mar 25, 2025 | MIT + file LICENSE |
| r-ramcharts | 2.1.10 | Provides an R interface for using 'AmCharts' Library. Based on 'htmlwidgets', it provides a global architecture to generate 'JavaScript' source code for charts. Most of classes in the library have their equivalent in R with S4 classes; for those classes, not all properties have been referenced but can easily be added in the constructors. Complex properties (e.g. 'JavaScript' object) can be passed as named list. See examples at <http://datastorm- open.github.io/introduction_ramcharts/> and <http://www.amcharts.com/> for more information about the library. The package includes the free version of 'AmCharts' Library. Its only limitation is a small link to the web site displayed on your charts. If you enjoy this library, do not hesitate to refer to this page <http://www.amcharts.com/online-store/> to purchase a licence, and thus support its creators and get a period of Priority Support. See also <http://www.amcharts.com/about/> for more information about 'AmCharts' company. | Mar 25, 2025 | GPL (>= 2) |
| r-rnvd3shaman | 0.1 | This package provides a familiar R interface to create interactive plots using NVD3.js | Mar 25, 2025 | MIT |
| r-scatterd3 | 0.9 | Creates 'D3' 'JavaScript' scatterplots from 'R' with interactive features : panning, zooming, tooltips, etc. | Mar 25, 2025 | GPL (>= 3) |
| r-shinydashboardshaman | 0.5.3 | Create dashboards with 'Shiny'. This package provides a theme on top of 'Shiny', making it easy to create attractive dashboards. | Mar 25, 2025 | GPL-2 |
| r-shinytoastr | 2.1.1 | Browser notifications in 'Shiny' apps, using 'toastr': <https://github.com/CodeSeven/toastr#readme>. | Mar 25, 2025 | MIT + file LICENSE |
| r-treeweightd3 | 0.9 | Draw abundance tree. | Mar 25, 2025 | GPL-3 |
| shaman | 1.0.3 | SHAMAN is a SHiny application for Metagenomic ANalysis including a bioinformatic workflow, the statistical analysis and multiple visualization. | Mar 25, 2025 | GPL (>= 3) |
