Package Name | Access | Summary | Updated |
---|---|---|---|

r-base | public | R is a free software environment for statistical computing and graphics. | 2019-07-22 |

r-xmlschema | public | R package to work with XML Schema | 2019-07-22 |

pyface | public | pyface - traits-capable windowing framework | 2019-07-22 |

qcengine | public | A wrapper for Quantum Chemistry engines that adheres to the MolSSI (molssi.org) QCSchema. | 2019-07-22 |

gitpython | public | Python Git Library | 2019-07-22 |

lightkurve | public | A friendly package for Kepler & TESS time series analysis in Python. | 2019-07-22 |

pytoml | public | A TOML-0.4.0 parser/writer for Python. | 2019-07-22 |

r-tidytree | public | Phylogenetic tree generally contains multiple components including node, edge, branch and associated data. 'tidytree' provides an approach to convert tree object to tidy data frame as well as provides tidy interfaces to manipulate tree data. | 2019-07-22 |

click-help-colors | public | Colorization of help messages in Click | 2019-07-22 |

sqlalchemy | public | Database Abstraction Library. | 2019-07-22 |

onnx | public | Open Neural Network Exchange library | 2019-07-22 |

r-rosm | public | Download and plot Open Street Map <http://www.openstreetmap.org/>, Bing Maps <http://www.bing.com/maps> and other tiled map sources. Use to create basemaps quickly and add hillshade to vector-based maps. | 2019-07-22 |

libbrial | public | Brial - successor to PolyBoRi | 2019-07-22 |

brial | public | Brial - successor to PolyBoRi | 2019-07-22 |

scikit-image | public | Image processing routines for SciPy. | 2019-07-22 |

gtk2 | public | Primary library used to construct user interfaces in GNOME applications | 2019-07-21 |

pyfmmlib | public | Python wrappers for FMMLIB2D and FMMLIB3D | 2019-07-21 |

pyparsing | public | Create and execute simple grammars | 2019-07-21 |

r-adehabitatlt | public | A collection of tools for the analysis of animal movements. | 2019-07-21 |

r-aggregation | public | Contains functionality for performing the following methods of p-value aggregation: Fisher's method [Fisher, RA (1932, ISBN: 9780028447308)], the Lancaster method (weighted Fisher's method) [Lancaster, HO (1961, <doi:10.1111/j.1467-842X.1961.tb00058.x>)], and Sidak correction [Sidak, Z (1967, <doi:10.1080/01621459.1967.10482935>)]. Please cite Yi et al., the manuscript corresponding to this package [Yi, L et al., (2017), <doi:10.1101/190199>]. | 2019-07-21 |

r-akima | public | Several cubic spline interpolation methods of H. Akima for irregular and regular gridded data are available through this package, both for the bivariate case (irregular data: ACM 761, regular data: ACM 760) and univariate case (ACM 433 and ACM 697). Linear interpolation of irregular gridded data is also covered by reusing D. J. Renkas triangulation code which is part of Akimas Fortran code. A bilinear interpolator for regular grids was also added for comparison with the bicubic interpolator on regular grids. | 2019-07-21 |

lcalc | public | No Summary | 2019-07-21 |

r-apcluster | public | Implements Affinity Propagation clustering introduced by Frey and Dueck (2007) <DOI | 2019-07-21 |

r-alakazam | public | Provides methods for high-throughput adaptive immune receptor repertoire sequencing (AIRR-Seq; Rep-Seq) analysis. In particular, immunoglobulin (Ig) sequence lineage reconstruction, lineage topology analysis, diversity profiling, amino acid property analysis and gene usage. Citations: Gupta and Vander Heiden, et al (2017) <doi:10.1093/bioinformatics/btv359>, Stern, Yaari and Vander Heiden, et al (2014) <doi:10.1126/scitranslmed.3008879>. | 2019-07-21 |

r-anomalydetection | public | Implements procedures developed by Gutierrez et al. (2017, <https://journal.r-project.org/archive/2017/RJ-2017-039/index.html>) to aid in detecting network log anomalies. By combining various multivariate analytic approaches relevant to network anomaly detection, it provides cyber analysts efficient means to detect suspected anomalies requiring further evaluation. | 2019-07-21 |

r-aod | public | This package provides a set of functions to analyse overdispersed counts or proportions. Most of the methods are already available elsewhere but are scattered in different packages. The proposed functions should be considered as complements to more sophisticated methods such as generalized estimating equations (GEE) or generalized linear mixed effect models (GLMM). | 2019-07-21 |

r-ahocorasicktrie | public | Aho-Corasick is an optimal algorithm for finding many keywords in a text. It can locate all matches in a text in O(N+M) time; i.e., the time needed scales linearly with the number of keywords (N) and the size of the text (M). Compare this to the naive approach which takes O(N*M) time to loop through each pattern and scan for it in the text. This implementation builds the trie (the generic name of the data structure) and runs the search in a single function call. If you want to search multiple texts with the same trie, the function will take a list or vector of texts and return a list of matches to each text. By default, all 128 ASCII characters are allowed in both the keywords and the text. A more efficient trie is possible if the alphabet size can be reduced. For example, DNA sequences use at most 19 distinct characters and usually only 4; protein sequences use at most 26 distinct characters and usually only 20. UTF-8 (Unicode) matching is not currently supported. | 2019-07-21 |

r-arules | public | Provides the infrastructure for representing, manipulating and analyzing transaction data and patterns (frequent itemsets and association rules). Also provides C implementations of the association mining algorithms Apriori and Eclat. | 2019-07-21 |

r-assotester | public | R package with statistical tests and methods for genetic association studies with emphasis on rare variants and binary (dichotomous) traits | 2019-07-21 |

r-apatables | public | A common task faced by researchers is the creation of APA style (i.e., American Psychological Association style) tables from statistical output. In R a large number of function calls are often needed to obtain all of the desired information for a single APA style table. As well, the process of manually creating APA style tables in a word processor is prone to transcription errors. This package creates Word files (.doc files) containing APA style tables for several types of analyses. Using this package minimizes transcription errors and reduces the number commands needed by the user. | 2019-07-21 |

r-ashr | public | The R package 'ashr' implements an Empirical Bayes approach for large-scale hypothesis testing and false discovery rate (FDR) estimation based on the methods proposed in M. Stephens, 2016, "False discovery rates: a new deal", <DOI:10.1093/biostatistics/kxw041>. These methods can be applied whenever two sets of summary statistics---estimated effects and standard errors---are available, just as 'qvalue' can be applied to previously computed p-values. Two main interfaces are provided: ash(), which is more user-friendly; and ash.workhorse(), which has more options and is geared toward advanced users. The ash() and ash.workhorse() also provides a flexible modeling interface that can accomodate a variety of likelihoods (e.g., normal, Poisson) and mixture priors (e.g., uniform, normal). | 2019-07-21 |

r-als | public | Alternating least squares is often used to resolve components contributing to data with a bilinear structure; the basic technique may be extended to alternating constrained least squares. Commonly applied constraints include unimodality, non-negativity, and normalization of components. Several data matrices may be decomposed simultaneously by assuming that one of the two matrices in the bilinear decomposition is shared between datasets. | 2019-07-21 |

r-anom | public | Analysis of means (ANOM) as used in technometrical computing. The package takes results from multiple comparisons with the grand mean (obtained with 'multcomp', 'SimComp', 'nparcomp', or 'MCPAN') or corresponding simultaneous confidence intervals as input and produces ANOM decision charts that illustrate which group means deviate significantly from the grand mean. | 2019-07-21 |

r-argonr | public | R wrapper around the argon HTML library. More at <https://demos.creative-tim.com/argon-design-system/>. | 2019-07-21 |

r-aplpack | public | Some functions for drawing some special plots: The function 'bagplot' plots a bagplot, 'faces' plots chernoff faces, 'iconplot' plots a representation of a frequency table or a data matrix, 'plothulls' plots hulls of a bivariate data set, 'plotsummary' plots a graphical summary of a data set, 'puticon' adds icons to a plot, 'skyline.hist' combines several histograms of a one dimensional data set in one plot, 'slider' functions supports some interactive graphics, 'spin3R' helps an inspection of a 3-dim point cloud, 'stem.leaf' plots a stem and leaf plot, 'stem.leaf.backback' plots back-to-back versions of stem and leaf plot. | 2019-07-21 |

r-biganalytics | public | Extend the 'bigmemory' package with various analytics. Functions 'bigkmeans' and 'binit' may also be used with native R objects. For 'tapply'-like functions, the bigtabulate package may also be helpful. For linear algebra support, see 'bigalgebra'. For mutex (locking) support for advanced shared-memory usage, see 'synchronicity'. | 2019-07-21 |

r-argumentcheck | public | The typical process of checking arguments in functions is iterative. In this process, an error may be returned and the user may fix it only to receive another error on a different argument. 'ArgumentCheck' facilitates a more helpful way to perform argument checks allowing the programmer to run all of the checks and then return all of the errors and warnings in a single message. | 2019-07-21 |

r-argparser | public | Cross-platform command-line argument parser written purely in R with no external dependencies. It is useful with the Rscript front-end and facilitates turning an R script into an executable script. | 2019-07-21 |

r-aroma.apd | public | DEPRECATED. Do not start building new projects based on this package. (The (in-house) APD file format was initially developed to store Affymetrix probe-level data, e.g. normalized CEL intensities. Chip types can be added to APD file and similar to methods in the affxparser package, this package provides methods to read APDs organized by units (probesets). In addition, the probe elements can be arranged optimally such that the elements are guaranteed to be read in order when, for instance, data is read unit by unit. This speeds up the read substantially. This package is supporting the Aroma framework and should not be used elsewhere.) | 2019-07-21 |

r-beanplot | public | Plots univariate comparison graphs, an alternative to boxplot/stripchart/violin plot. | 2019-07-21 |

r-base64 | public | Compatibility wrapper to replace the orphaned package by Romain Francois. New applications should use the 'openssl' or 'base64enc' package instead. | 2019-07-21 |

r-basix | public | BASIX provides some efficient C/C++ implementations to speed up calculations in R. | 2019-07-21 |

r-bench | public | Tools to accurately benchmark and analyze execution times for R expressions. | 2019-07-21 |

r-bfa | public | Provides model fitting for several Bayesian factor models including Gaussian, ordinal probit, mixed and semiparametric Gaussian copula factor models under a range of priors. | 2019-07-21 |

r-bio3d | public | Utilities to process, organize and explore protein structure, sequence and dynamics data. Features include the ability to read and write structure, sequence and dynamic trajectory data, perform sequence and structure database searches, data summaries, atom selection, alignment, superposition, rigid core identification, clustering, torsion analysis, distance matrix analysis, structure and sequence conservation analysis, normal mode analysis, principal component analysis of heterogeneous structure data, and correlation network analysis from normal mode and molecular dynamics data. In addition, various utility functions are provided to enable the statistical and graphical power of the R environment to work with biological sequence and structural data. Please refer to the URLs below for more information. | 2019-07-21 |

r-bigrquery | public | Easily talk to Google's 'BigQuery' database from R. | 2019-07-21 |

r-bestglm | public | Best subset glm using information criteria or cross-validation. Implements PCR and PLS using AIC/BIC. Implements one-standard deviation rule for use with the `caret` package. | 2019-07-21 |

r-bglr | public | Bayesian Generalized Linear Regression. | 2019-07-21 |

r-bezier | public | The bezier package is a toolkit for working with Bezier curves and splines. The package provides functions for point generation, arc length estimation, degree elevation and curve fitting. | 2019-07-21 |

r-autoplotly | public | Functionalities to automatically generate interactive visualizations for popular statistical results supported by 'ggfortify', such as time series, PCA, clustering and survival analysis, with 'plotly.js' <https://plot.ly/> and 'ggplot2' style. The generated visualizations can also be easily extended using 'ggplot2' and 'plotly' syntax while staying interactive. | 2019-07-21 |

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