Showing 57 of total 57 results (show query)
cvxgrp
CVXR:Disciplined Convex Optimization
An object-oriented modeling language for disciplined convex programming (DCP) as described in Fu, Narasimhan, and Boyd (2020, <doi:10.18637/jss.v094.i14>). It allows the user to formulate convex optimization problems in a natural way following mathematical convention and DCP rules. The system analyzes the problem, verifies its convexity, converts it into a canonical form, and hands it off to an appropriate solver to obtain the solution. Interfaces to solvers on CRAN and elsewhere are provided, both commercial and open source.
Maintained by Anqi Fu. Last updated 5 months ago.
207 stars 12.89 score 768 scripts 51 dependents
spedygiorgio
markovchain:Easy Handling Discrete Time Markov Chains
Functions and S4 methods to create and manage discrete time Markov chains more easily. In addition functions to perform statistical (fitting and drawing random variates) and probabilistic (analysis of their structural proprieties) analysis are provided. See Spedicato (2017) <doi:10.32614/RJ-2017-036>. Some functions for continuous times Markov chains depend on the suggested ctmcd package.
Maintained by Giorgio Alfredo Spedicato. Last updated 5 months ago.
ctmcdtmcmarkov-chainmarkov-modelr-programmingrcppopenblascpp
104 stars 12.78 score 712 scripts 4 dependents
klmr
box:Write Reusable, Composable and Modular R Code
A modern module system for R. Organise code into hierarchical, composable, reusable modules, and use it effortlessly across projects via a flexible, declarative dependency loading syntax.
Maintained by Konrad Rudolph. Last updated 25 days ago.
888 stars 12.39 score 47 scripts 4 dependents
bioc
TFBSTools:Software Package for 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.
Maintained by Ge Tan. Last updated 17 days ago.
motifannotationgeneregulationmotifdiscoverytranscriptionalignment
28 stars 12.36 score 1.1k scripts 18 dependentsbioc
ShortRead:FASTQ input and manipulation
This package implements sampling, iteration, and input of FASTQ files. The package includes functions for filtering and trimming reads, and for generating a quality assessment report. Data are represented as DNAStringSet-derived objects, and easily manipulated for a diversity of purposes. The package also contains legacy support for early single-end, ungapped alignment formats.
Maintained by Bioconductor Package Maintainer. Last updated 5 months ago.
dataimportsequencingqualitycontrolbioconductor-packagecore-packagezlibcpp
8 stars 12.08 score 1.8k scripts 49 dependents
tiledb-inc
tiledb:Modern Database Engine for Complex Data Based on Multi-Dimensional Arrays
The modern database 'TileDB' introduces a powerful on-disk format for storing and accessing any complex data based on multi-dimensional arrays. It supports dense and sparse arrays, dataframes and key-values stores, cloud storage ('S3', 'GCS', 'Azure'), chunked arrays, multiple compression, encryption and checksum filters, uses a fully multi-threaded implementation, supports parallel I/O, data versioning ('time travel'), metadata and groups. It is implemented as an embeddable cross-platform C++ library with APIs from several languages, and integrations. This package provides the R support.
Maintained by Isaiah Norton. Last updated 2 days ago.
arrayhdfss3storage-managertiledbcpp
108 stars 11.79 score 306 scripts 4 dependentsbioc
Rgraphviz:Provides plotting capabilities for R graph objects
Interfaces R with the AT and T graphviz library for plotting R graph objects from the graph package.
Maintained by Kasper Daniel Hansen. Last updated 3 days ago.
graphandnetworkvisualizationzlib
11.51 score 1.2k scripts 107 dependents
eddelbuettel
RProtoBuf:R Interface to the 'Protocol Buffers' 'API' (Version 2 or 3)
Protocol Buffers are a way of encoding structured data in an efficient yet extensible format. Google uses Protocol Buffers for almost all of its internal 'RPC' protocols and file formats. Additional documentation is available in two included vignettes one of which corresponds to our 'JSS' paper (2016, <doi:10.18637/jss.v071.i02>. A sufficiently recent version of 'Protocol Buffers' library is required; currently version 3.3.0 from 2017 is the stated minimum.
Maintained by Dirk Eddelbuettel. Last updated 13 days ago.
c-plus-plusprotocol-buffersprotobufcpp
73 stars 11.44 score 126 scripts 21 dependentsbioc
PharmacoGx:Analysis of Large-Scale Pharmacogenomic Data
Contains a set of functions to perform large-scale analysis of pharmaco-genomic data. These include the PharmacoSet object for storing the results of pharmacogenomic experiments, as well as a number of functions for computing common summaries of drug-dose response and correlating them with the molecular features in a cancer cell-line.
Maintained by Benjamin Haibe-Kains. Last updated 3 months ago.
geneexpressionpharmacogeneticspharmacogenomicssoftwareclassificationdatasetspharmacogenomicpharmacogxcpp
68 stars 11.39 score 442 scripts 3 dependentsbioc
ORFik:Open Reading Frames in Genomics
R package for analysis of transcript and translation features through manipulation of sequence data and NGS data like Ribo-Seq, RNA-Seq, TCP-Seq and CAGE. It is generalized in the sense that any transcript region can be analysed, as the name hints to it was made with investigation of ribosomal patterns over Open Reading Frames (ORFs) as it's primary use case. ORFik is extremely fast through use of C++, data.table and GenomicRanges. Package allows to reassign starts of the transcripts with the use of CAGE-Seq data, automatic shifting of RiboSeq reads, finding of Open Reading Frames for whole genomes and much more.
Maintained by Haakon Tjeldnes. Last updated 1 months ago.
immunooncologysoftwaresequencingriboseqrnaseqfunctionalgenomicscoveragealignmentdataimportcpp
33 stars 10.56 score 115 scripts 2 dependents
crunch-io
crunch:Crunch.io Data Tools
The Crunch.io service <https://crunch.io/> provides a cloud-based data store and analytic engine, as well as an intuitive web interface. Using this package, analysts can interact with and manipulate Crunch datasets from within R. Importantly, this allows technical researchers to collaborate naturally with team members, managers, and clients who prefer a point-and-click interface.
Maintained by Greg Freedman Ellis. Last updated 8 days ago.
9 stars 10.47 score 200 scripts 2 dependents
geoffjentry
twitteR:R Based Twitter Client
Provides an interface to the Twitter web API.
Maintained by Jeff Gentry. Last updated 9 years ago.
254 stars 10.12 score 2.0k scripts 1 dependents
daattali
ddpcr:Analysis and Visualization of Droplet Digital PCR in R and on the Web
An interface to explore, analyze, and visualize droplet digital PCR (ddPCR) data in R. This is the first non-proprietary software for analyzing two-channel ddPCR data. An interactive tool was also created and is available online to facilitate this analysis for anyone who is not comfortable with using R.
Maintained by Dean Attali. Last updated 1 years ago.
61 stars 9.54 score 131 scripts 2 dependentsbioc
GenomicInteractions:Utilities for handling genomic interaction data
Utilities for handling genomic interaction data such as ChIA-PET or Hi-C, annotating genomic features with interaction information, and producing plots and summary statistics.
Maintained by Liz Ing-Simmons. Last updated 5 months ago.
softwareinfrastructuredataimportdatarepresentationhic
7 stars 9.31 score 162 scripts 5 dependents
flr
FLCore:Core Package of FLR, Fisheries Modelling in R
Core classes and methods for FLR, a framework for fisheries modelling and management strategy simulation in R. Developed by a team of fisheries scientists in various countries. More information can be found at <http://flr-project.org/>.
Maintained by Iago Mosqueira. Last updated 9 days ago.
fisheriesflrfisheries-modelling
16 stars 8.78 score 956 scripts 23 dependents
r-forge
distr:Object Oriented Implementation of Distributions
S4-classes and methods for distributions.
Maintained by Peter Ruckdeschel. Last updated 2 months ago.
8.77 score 327 scripts 32 dependents
magnusdv
pedtools:Creating and Working with Pedigrees and Marker Data
A comprehensive collection of tools for creating, manipulating and visualising pedigrees and genetic marker data. Pedigrees can be read from text files or created on the fly with built-in functions. A range of utilities enable modifications like adding or removing individuals, breaking loops, and merging pedigrees. An online tool for creating pedigrees interactively, based on 'pedtools', is available at <https://magnusdv.shinyapps.io/quickped>. 'pedtools' is the hub of the 'pedsuite', a collection of packages for pedigree analysis. A detailed presentation of the 'pedsuite' is given in the book 'Pedigree Analysis in R' (Vigeland, 2021, ISBN:9780128244302).
Maintained by Magnus Dehli Vigeland. Last updated 11 days ago.
25 stars 8.72 score 60 scripts 18 dependentsbioc
GenomicScores:Infrastructure to work with genomewide position-specific scores
Provide infrastructure to store and access genomewide position-specific scores within R and Bioconductor.
Maintained by Robert Castelo. Last updated 2 months ago.
infrastructuregeneticsannotationsequencingcoverageannotationhubsoftware
8 stars 8.71 score 83 scripts 6 dependentsbioc
FRASER:Find RAre Splicing Events in RNA-Seq Data
Detection of rare aberrant splicing events in transcriptome profiles. Read count ratio expectations are modeled by an autoencoder to control for confounding factors in the data. Given these expectations, the ratios are assumed to follow a beta-binomial distribution with a junction specific dispersion. Outlier events are then identified as read-count ratios that deviate significantly from this distribution. FRASER is able to detect alternative splicing, but also intron retention. The package aims to support diagnostics in the field of rare diseases where RNA-seq is performed to identify aberrant splicing defects.
Maintained by Christian Mertes. Last updated 5 months ago.
rnaseqalternativesplicingsequencingsoftwaregeneticscoverageaberrant-splicingdiagnosticsoutlier-detectionrare-diseaserna-seqsplicingopenblascpp
41 stars 8.50 score 155 scripts
jsilve24
fido:Bayesian Multinomial Logistic Normal Regression
Provides methods for fitting and inspection of Bayesian Multinomial Logistic Normal Models using MAP estimation and Laplace Approximation as developed in Silverman et. Al. (2022) <https://www.jmlr.org/papers/v23/19-882.html>. Key functionality is implemented in C++ for scalability. 'fido' replaces the previous package 'stray'.
Maintained by Justin Silverman. Last updated 1 months ago.
20 stars 8.31 score 103 scripts
polmine
polmineR:Verbs and Nouns for Corpus Analysis
Package for corpus analysis using the Corpus Workbench ('CWB', <https://cwb.sourceforge.io>) as an efficient back end for indexing and querying large corpora. The package offers functionality to flexibly create subcorpora and to carry out basic statistical operations (count, co-occurrences etc.). The original full text of documents can be reconstructed and inspected at any time. Beyond that, the package is intended to serve as an interface to packages implementing advanced statistical procedures. Respective data structures (document-term matrices, term-co-occurrence matrices etc.) can be created based on the indexed corpora.
Maintained by Andreas Blaette. Last updated 1 years ago.
49 stars 7.96 score 311 scripts
rapporter
rapportools:Miscellaneous (Stats) Helper Functions with Sane Defaults for Reporting
Helper functions that act as wrappers to more advanced statistical methods with the advantage of having sane defaults for quick reporting.
Maintained by Gergely Daróczi. Last updated 29 days ago.
8 stars 7.50 score 186 scripts 11 dependents
trinker
wakefield:Generate Random Data Sets
Generates random data sets including: data.frames, lists, and vectors.
Maintained by Tyler Rinker. Last updated 5 years ago.
256 stars 7.13 score 209 scripts
syncrosim
rsyncrosim:The R Interface to 'SyncroSim'
'SyncroSim' is a generalized framework for managing scenario-based datasets (<https://syncrosim.com/>). 'rsyncrosim' provides an interface to 'SyncroSim'. Simulation models can be added to 'SyncroSim' in order to transform these datasets, taking advantage of general features such as defining scenarios of model inputs, running Monte Carlo simulations, and summarizing model outputs. 'rsyncrosim' requires 'SyncroSim' 2.3.5 or higher (API documentation: <https://docs.syncrosim.com/>).
Maintained by Katie Birchard. Last updated 22 days ago.
9 stars 7.09 score 189 scripts
khliland
baseline:Baseline Correction of Spectra
Collection of baseline correction algorithms, along with a framework and a Tcl/Tk enabled GUI for optimising baseline algorithm parameters. Typical use of the package is for removing background effects from spectra originating from various types of spectroscopy and spectrometry, possibly optimizing this with regard to regression or classification results. Correction methods include polynomial fitting, weighted local smoothers and many more.
Maintained by Kristian Hovde Liland. Last updated 10 months ago.
9 stars 7.07 score 74 scripts 12 dependentsbioc
scClassify:scClassify: single-cell Hierarchical Classification
scClassify is a multiscale classification framework for single-cell RNA-seq data based on ensemble learning and cell type hierarchies, enabling sample size estimation required for accurate cell type classification and joint classification of cells using multiple references.
Maintained by Yingxin Lin. Last updated 5 months ago.
singlecellgeneexpressionclassification
23 stars 6.92 score 30 scriptsr-forge
distrEx:Extensions of Package 'distr'
Extends package 'distr' by functionals, distances, and conditional distributions.
Maintained by Matthias Kohl. Last updated 2 months ago.
6.64 score 107 scripts 17 dependentsr-forge
distrMod:Object Oriented Implementation of Probability Models
Implements S4 classes for probability models based on packages 'distr' and 'distrEx'.
Maintained by Peter Ruckdeschel. Last updated 2 months ago.
6.60 score 139 scripts 6 dependents
mgondan
mathml:Translate R Expressions to 'MathML' and 'LaTeX'/'MathJax'
Translate R expressions to 'MathML' or 'MathJax'/'LaTeX' so that they can be rendered in R markdown documents and shiny apps. This package depends on R package 'rolog', which requires an installation of the 'SWI'-'Prolog' runtime either from 'swi-prolog.org' or from R package 'rswipl'.
Maintained by Matthias Gondan. Last updated 7 days ago.
4 stars 6.46 score 32 scriptsbioc
CoreGx:Classes and Functions to Serve as the Basis for Other 'Gx' Packages
A collection of functions and classes which serve as the foundation for our lab's suite of R packages, such as 'PharmacoGx' and 'RadioGx'. This package was created to abstract shared functionality from other lab package releases to increase ease of maintainability and reduce code repetition in current and future 'Gx' suite programs. Major features include a 'CoreSet' class, from which 'RadioSet' and 'PharmacoSet' are derived, along with get and set methods for each respective slot. Additional functions related to fitting and plotting dose response curves, quantifying statistical correlation and calculating area under the curve (AUC) or survival fraction (SF) are included. For more details please see the included documentation, as well as: Smirnov, P., Safikhani, Z., El-Hachem, N., Wang, D., She, A., Olsen, C., Freeman, M., Selby, H., Gendoo, D., Grossman, P., Beck, A., Aerts, H., Lupien, M., Goldenberg, A. (2015) <doi:10.1093/bioinformatics/btv723>. Manem, V., Labie, M., Smirnov, P., Kofia, V., Freeman, M., Koritzinksy, M., Abazeed, M., Haibe-Kains, B., Bratman, S. (2018) <doi:10.1101/449793>.
Maintained by Benjamin Haibe-Kains. Last updated 5 months ago.
softwarepharmacogenomicsclassificationsurvival
6.36 score 63 scripts 6 dependents
spatialnous
alcyon:Spatial Network Analysis
Interface package for 'sala', the spatial network analysis library from the 'depthmapX' software application. The R parts of the code are based on the 'rdepthmap' package. Allows for the analysis of urban and building-scale networks and provides metrics and methods usually found within the Space Syntax domain. Methods in this package are described by K. Al-Sayed, A. Turner, B. Hillier, S. Iida and A. Penn (2014) "Space Syntax methodology", and also by A. Turner (2004) <https://discovery.ucl.ac.uk/id/eprint/2651> "Depthmap 4: a researcher's handbook".
Maintained by Petros Koutsolampros. Last updated 2 days ago.
2 stars 6.32 score 13 scriptsbioc
spatialHeatmap:spatialHeatmap: Visualizing Spatial Assays in Anatomical Images and Large-Scale Data Extensions
The spatialHeatmap package offers the primary functionality for visualizing cell-, tissue- and organ-specific assay data in spatial anatomical images. Additionally, it provides extended functionalities for large-scale data mining routines and co-visualizing bulk and single-cell data. A description of the project is available here: https://spatialheatmap.org.
Maintained by Jianhai Zhang. Last updated 4 months ago.
spatialvisualizationmicroarraysequencinggeneexpressiondatarepresentationnetworkclusteringgraphandnetworkcellbasedassaysatacseqdnaseqtissuemicroarraysinglecellcellbiologygenetarget
5 stars 6.26 score 12 scriptsbioc
ReportingTools:Tools for making reports in various formats
The ReportingTools software package enables users to easily display reports of analysis results generated from sources such as microarray and sequencing data. The package allows users to create HTML pages that may be viewed on a web browser such as Safari, or in other formats readable by programs such as Excel. Users can generate tables with sortable and filterable columns, make and display plots, and link table entries to other data sources such as NCBI or larger plots within the HTML page. Using the package, users can also produce a table of contents page to link various reports together for a particular project that can be viewed in a web browser. For more examples, please visit our site: http:// research-pub.gene.com/ReportingTools.
Maintained by Jason A. Hackney. Last updated 5 months ago.
immunooncologysoftwarevisualizationmicroarrayrnaseqgodatarepresentationgenesetenrichment
6.23 score 93 scripts 1 dependentsbioc
qcmetrics:A Framework for Quality Control
The package provides a framework for generic quality control of data. It permits to create, manage and visualise individual or sets of quality control metrics and generate quality control reports in various formats.
Maintained by Laurent Gatto. Last updated 5 months ago.
immunooncologysoftwarequalitycontrolproteomicsmicroarraymassspectrometryvisualizationreportwriting
2 stars 6.03 score 2 dependents
albertofranzin
bnstruct:Bayesian Network Structure Learning from Data with Missing Values
Bayesian Network Structure Learning from Data with Missing Values. The package implements the Silander-Myllymaki complete search, the Max-Min Parents-and-Children, the Hill-Climbing, the Max-Min Hill-climbing heuristic searches, and the Structural Expectation-Maximization algorithm. Available scoring functions are BDeu, AIC, BIC. The package also implements methods for generating and using bootstrap samples, imputed data, inference.
Maintained by Alberto Franzin. Last updated 1 years ago.
1 stars 5.40 score 111 scripts 3 dependents
eglenn
acs:Download, Manipulate, and Present American Community Survey and Decennial Data from the US Census
Provides a general toolkit for downloading, managing, analyzing, and presenting data from the U.S. Census (<https://www.census.gov/data/developers/data-sets.html>), including SF1 (Decennial short-form), SF3 (Decennial long-form), and the American Community Survey (ACS). Confidence intervals provided with ACS data are converted to standard errors to be bundled with estimates in complex acs objects. Package provides new methods to conduct standard operations on acs objects and present/plot data in statistically appropriate ways.
Maintained by Ezra Haber Glenn. Last updated 6 years ago.
11 stars 5.33 score 430 scripts 3 dependents
lbbe-software
MareyMap:Estimation of Meiotic Recombination Rates Using Marey Maps
Local recombination rates are graphically estimated across a genome using Marey maps.
Maintained by Aurélie Siberchicot. Last updated 26 days ago.
1 stars 5.30 score 20 scripts
alphaprime7
normfluodbf:Cleans and Normalizes FLUOstar DBF and DAT Files from 'Liposome' Flux Assays
Cleans and Normalizes FLUOstar DBF and DAT Files obtained from liposome flux assays. Users should verify extended usage of the package on files from other assay types.
Maintained by Tingwei Adeck. Last updated 5 months ago.
1 stars 4.98 score 12 scriptsr-forge
RobAStBase:Robust Asymptotic Statistics
Base S4-classes and functions for robust asymptotic statistics.
Maintained by Matthias Kohl. Last updated 2 months ago.
4.96 score 64 scripts 4 dependents
henrikbengtsson
R.filesets:Easy Handling of and Access to Files Organized in Structured Directories
A file set refers to a set of files located in one or more directories on the file system. This package provides classes and methods to locate, setup, subset, navigate and iterate such sets. The API is designed such that these classes can be extended via inheritance to provide a richer API for special file formats. Moreover, a specific name format is defined such that filenames and directories can be considered to have full names which consists of a name followed by comma-separated tags. This adds additional flexibility to identify file sets and individual files. NOTE: This package's API should be considered to be in an beta stage. Its main purpose is currently to support the aroma.* packages, where it is one of the main core components; if you decide to build on top of this package, please contact the author first.
Maintained by Henrik Bengtsson. Last updated 1 years ago.
2 stars 4.76 score 23 scripts 7 dependentsbioc
flowFP:Fingerprinting for Flow Cytometry
Fingerprint generation of flow cytometry data, used to facilitate the application of machine learning and datamining tools for flow cytometry.
Maintained by Herb Holyst. Last updated 5 months ago.
flowcytometrycellbasedassaysclusteringvisualization
4.72 score 11 scripts 2 dependentsbioc
rsbml:R support for SBML, using libsbml
Links R to libsbml for SBML parsing, validating output, provides an S4 SBML DOM, converts SBML to R graph objects. Optionally links to the SBML ODE Solver Library (SOSLib) for simulating models.
Maintained by Michael Lawrence. Last updated 1 months ago.
graphandnetworkpathwaysnetworklibsbmlcpp
4.71 score 19 scripts 1 dependentsbioc
ToxicoGx:Analysis of Large-Scale Toxico-Genomic Data
Contains a set of functions to perform large-scale analysis of toxicogenomic data, providing a standardized data structure to hold information relevant to annotation, visualization and statistical analysis of toxicogenomic data.
Maintained by Benjamin Haibe-Kains. Last updated 5 months ago.
geneexpressionpharmacogeneticspharmacogenomicssoftware
4.36 score 23 scripts
pi-kappa-devel
markets:Estimation Methods for Markets in Equilibrium and Disequilibrium
Provides estimation methods for markets in equilibrium and disequilibrium. Supports the estimation of an equilibrium and four disequilibrium models with both correlated and independent shocks. Also provides post-estimation analysis tools, such as aggregation, marginal effect, and shortage calculations. See Karapanagiotis (2024) <doi:10.18637/jss.v108.i02> for an overview of the functionality and examples. The estimation methods are based on full information maximum likelihood techniques given in Maddala and Nelson (1974) <doi:10.2307/1914215>. They are implemented using the analytic derivative expressions calculated in Karapanagiotis (2020) <doi:10.2139/ssrn.3525622>. Standard errors can be estimated by adjusting for heteroscedasticity or clustering. The equilibrium estimation constitutes a case of a system of linear, simultaneous equations. Instead, the disequilibrium models replace the market-clearing condition with a non-linear, short-side rule and allow for different specifications of price dynamics.
Maintained by Pantelis Karapanagiotis. Last updated 1 years ago.
disequilibriumeconomicsfinancefull-information-maximum-likelihoodmarket-clearingmarket-modelsshort-side-rulecpp
1 stars 4.30 score 9 scriptsbioc
multiWGCNA:multiWGCNA
An R package for deeping mining gene co-expression networks in multi-trait expression data. Provides functions for analyzing, comparing, and visualizing WGCNA networks across conditions. multiWGCNA was designed to handle the common case where there are multiple biologically meaningful sample traits, such as disease vs wildtype across development or anatomical region.
Maintained by Dario Tommasini. Last updated 5 months ago.
sequencingrnaseqgeneexpressiondifferentialexpressionregressionclustering
4.30 score 6 scriptsbioc
XNAString:Efficient Manipulation of Modified Oligonucleotide Sequences
The XNAString package allows for description of base sequences and associated chemical modifications in a single object. XNAString is able to capture single stranded, as well as double stranded molecules. Chemical modifications are represented as independent strings associated with different features of the molecules (base sequence, sugar sequence, backbone sequence, modifications) and can be read or written to a HELM notation. It also enables secondary structure prediction using RNAfold from ViennaRNA. XNAString is designed to be efficient representation of nucleic-acid based therapeutics, therefore it stores information about target sequences and provides interface for matching and alignment functions from Biostrings and pwalign packages.
Maintained by Marianna Plucinska. Last updated 5 months ago.
sequencematchingalignmentsequencinggeneticscpp
4.18 score 4 scriptsr-forge
distrSim:Simulation Classes Based on Package 'distr'
S4-classes for setting up a coherent framework for simulation within the distr family of packages.
Maintained by Peter Ruckdeschel. Last updated 2 months ago.
4.16 score 7 scripts 3 dependents
pepijn-devries
ProTrackR:Manipulate and Play 'ProTracker' Modules
'ProTracker' is a popular music tracker to sequence music on a Commodore Amiga machine. This package offers the opportunity to import, export, manipulate and play 'ProTracker' module files. Even though the file format could be considered archaic, it still remains popular to this date. This package intends to contribute to this popularity and therewith keeping the legacy of 'ProTracker' and the Commodore Amiga alive.
Maintained by Pepijn de Vries. Last updated 3 months ago.
4 stars 4.12 score 66 scripts
msanchez-beeckman
ColorNameR:Give Colors a Name
A tool for transforming coordinates in a color space to common color names using data from the Royal Horticultural Society and the International Union for the Protection of New Varieties of Plants.
Maintained by Marco Sánchez Beeckman. Last updated 4 years ago.
7 stars 4.02 score 10 scripts 1 dependents
simon-lenau
prolific.api:A User-Friendly Interface for Accessing the Prolific API
A user-friendly interface for creating and managing empirical crowd-sourcing studies via API access to <https://www.prolific.co>.
Maintained by Simon Lenau. Last updated 2 years ago.
crowd-sourcingcrowdsourcing-experimentscrowdsourcing-platformsempirical-researchparticipantssampling
3.70 score 8 scriptsr-forge
distrTEst:Estimation and Testing Classes Based on Package 'distr'
Evaluation (S4-)classes based on package distr for evaluating procedures (estimators/tests) at data/simulation in a unified way.
Maintained by Peter Ruckdeschel. Last updated 2 months ago.
3.68 score 3 scripts 1 dependents
lawremi
rsolr:R to Solr Interface
A comprehensive R API for querying Apache Solr databases. A Solr core is represented as a data frame or list that supports Solr-side filtering, sorting, transformation and aggregation, all through the familiar base R API. Queries are processed lazily, i.e., a query is only sent to the database when the data are required.
Maintained by Michael Lawrence. Last updated 3 years ago.
9 stars 3.65 score 6 scriptsbioc
R453Plus1Toolbox:A package for importing and analyzing data from Roche's Genome Sequencer System
The R453Plus1 Toolbox comprises useful functions for the analysis of data generated by Roche's 454 sequencing platform. It adds functions for quality assurance as well as for annotation and visualization of detected variants, complementing the software tools shipped by Roche with their product. Further, a pipeline for the detection of structural variants is provided.
Maintained by Hans-Ulrich Klein. Last updated 5 months ago.
sequencinginfrastructuredataimportdatarepresentationvisualizationqualitycontrolreportwriting
3.48 score 10 scriptsbioc
flowBin:Combining multitube flow cytometry data by binning
Software to combine flow cytometry data that has been multiplexed into multiple tubes with common markers between them, by establishing common bins across tubes in terms of the common markers, then determining expression within each tube for each bin in terms of the tube-specific markers.
Maintained by Kieran ONeill. Last updated 5 months ago.
immunooncologycellbasedassaysflowcytometry
3.30 score 2 scripts
austinrwarner
tabulog:Parsing Semi-Structured Log Files into Tabular Format
Convert semi-structured log files (such as 'Apache' access.log files) into a tabular format (data.frame) using a standard template system.
Maintained by Austin Nar. Last updated 6 years ago.
2.70 score 5 scripts
ralmond
EIEvent:Evidence Identification Event Processing Engine
Extracts observables from a sequence of events. Uses a prolog-like rule language to do the extraction, written in JSON.
Maintained by Russell Almond. Last updated 1 years ago.
assessment-scoringevidence-centered-design
2.00 score 2 scripts
