Showing 19 of total 19 results (show query)
bioc
OmnipathR:OmniPath web service client and more
A client for the OmniPath web service (https://www.omnipathdb.org) and many other resources. It also includes functions to transform and pretty print some of the downloaded data, functions to access a number of other resources such as BioPlex, ConsensusPathDB, EVEX, Gene Ontology, Guide to Pharmacology (IUPHAR/BPS), Harmonizome, HTRIdb, Human Phenotype Ontology, InWeb InBioMap, KEGG Pathway, Pathway Commons, Ramilowski et al. 2015, RegNetwork, ReMap, TF census, TRRUST and Vinayagam et al. 2011. Furthermore, OmnipathR features a close integration with the NicheNet method for ligand activity prediction from transcriptomics data, and its R implementation `nichenetr` (available only on github).
Maintained by Denes Turei. Last updated 1 months ago.
graphandnetworknetworkpathwayssoftwarethirdpartyclientdataimportdatarepresentationgenesignalinggeneregulationsystemsbiologytranscriptomicssinglecellannotationkeggcomplexesenzyme-ptmnetworksnetworks-biologyomnipathproteinsquarto
130 stars 9.90 score 226 scripts 2 dependents
gadenbuie
epoxy:String Interpolation for Documents, Reports and Apps
Extra strength 'glue' for data-driven templates. String interpolation for 'Shiny' apps or 'R Markdown' and 'knitr'-powered 'Quarto' documents, built on the 'glue' and 'whisker' packages.
Maintained by Garrick Aden-Buie. Last updated 12 months ago.
glueknitrknitr-enginequartormarkdownrmdshinytemplate
218 stars 8.43 score 312 scripts
surveydown-dev
surveydown:Markdown-Based Surveys Using 'Quarto' and 'shiny'
Generate surveys using markdown and R code chunks. Surveys are composed of two files: a survey.qmd 'Quarto' file defining the survey content (pages, questions, etc), and an app.R file defining a 'shiny' app with global settings (libraries, database configuration, etc.) and server configuration options (e.g., conditional skipping / display, etc.). Survey data collected from respondents is stored in a 'PostgreSQL' database. Features include controls for conditional skip logic (skip to a page based on an answer to a question), conditional display logic (display a question based on an answer to a question), a customizable progress bar, and a wide variety of question types, including multiple choice (single choice and multiple choices), select, text, numeric, multiple choice buttons, text area, and dates. Because the surveys render into a 'shiny' app, designers can also leverage the reactive capabilities of 'shiny' to create dynamic and interactive surveys.
Maintained by John Paul Helveston. Last updated 4 days ago.
markdownpostgrespostgresqlquartoshinyshiny-appsshiny-rsupabasesurveysurveys
97 stars 8.29 score 133 scripts
nmfs-ost
asar:Build NOAA Stock Assessment Report
Build a full or update stock assessment report for any stock assessment model. Parameterization allows the user to call a template based on their regional science center, species, area, ect.
Maintained by Samantha Schiano. Last updated 21 days ago.
latexquartostock-assessment-reports
21 stars 6.87 score 3 scripts
arnaudgallou
plume:A Simple Author Handler for Scientific Writing
Handles and formats author information in scientific writing in 'R Markdown' and 'Quarto'. 'plume' provides easy-to-use and flexible tools for injecting author metadata in 'YAML' headers as well as generating author and contribution lists (among others) as strings from tabular data.
Maintained by Arnaud Gallou. Last updated 8 days ago.
authorscontributioncontributionslistlistsmarkdownpaperpreprintquartoroleroles
20 stars 6.82 score 15 scripts
cgoo4
usedthese:Summarises Package & Function Usage
Consistent with 'knitr' syntax highlighting, 'usedthese' adds a summary table of package & function usage to a Quarto document and enables aggregation of usage across a website.
Maintained by Carl Goodwin. Last updated 9 months ago.
7 stars 6.70 score 120 scripts
kylegrealis
froggeR:Enhance 'Quarto' Project Workflows and Standards
Streamlines 'Quarto' workflows by providing tools for consistent project setup and documentation. Enables portability through reusable metadata, automated project structure creation, and standardized templates. Features include enhanced project initialization, pre-formatted 'Quarto' documents, comprehensive data protection settings, custom styling, and structured documentation generation. Designed to improve efficiency and collaboration in R data science projects by reducing repetitive setup tasks while maintaining consistent formatting across multiple documents. There are many valuable resources providing in-depth explanations of customizing 'Quarto' templates and theme styling by the Posit team: <https://quarto.org/docs/output-formats/html-themes.html#customizing-themes> & <https://quarto.org/docs/output-formats/html-themes-more.html>, and at the Bootstrap community's GitHub at <https://github.com/twbs/bootstrap/blob/main/scss/_variables.scss>.
Maintained by Kyle Grealis. Last updated 15 days ago.
data-scienceproject-managementquarto
26 stars 6.67 score 6 scripts
sagirumati
DynareR:Bringing the Power of 'Dynare' to 'R', 'R Markdown', and 'Quarto'
It allows running 'Dynare' program from base R, R Markdown and Quarto. 'Dynare' is a software platform for handling a wide class of economic models, in particular dynamic stochastic general equilibrium ('DSGE') and overlapping generations ('OLG') models. This package does not only integrate R and Dynare but also serves as a 'Dynare' Knit-Engine for 'knitr' package. The package requires 'Dynare' (<https://www.dynare.org/>) and 'Octave' (<https://www.octave.org/download.html>). Write all your 'Dynare' commands in R or R Markdown chunk.
Maintained by Sagiru Mati. Last updated 5 months ago.
9 stars 6.29 score 143 scriptsbioc
gINTomics:Multi-Omics data integration
gINTomics is an R package for Multi-Omics data integration and visualization. gINTomics is designed to detect the association between the expression of a target and of its regulators, taking into account also their genomics modifications such as Copy Number Variations (CNV) and methylation. What is more, gINTomics allows integration results visualization via a Shiny-based interactive app.
Maintained by Angelo Velle. Last updated 5 months ago.
geneexpressionrnaseqmicroarrayvisualizationcopynumbervariationgenetargetquarto
3 stars 4.78 score 3 scripts
sayuks
quartabs:Dynamically Generate Tabset Panels in 'Quarto' HTML Documents
Dynamically generate tabset panels <https://quarto.org/docs/output-formats/html-basics.html#tabsets> in 'Quarto' HTML documents using a data frame as input.
Maintained by Yusuke Sasaki. Last updated 15 hours ago.
8 stars 4.64 scorebioc
wppi:Weighting protein-protein interactions
Protein-protein interaction data is essential for omics data analysis and modeling. Database knowledge is general, not specific for cell type, physiological condition or any other context determining which connections are functional and contribute to the signaling. Functional annotations such as Gene Ontology and Human Phenotype Ontology might help to evaluate the relevance of interactions. This package predicts functional relevance of protein-protein interactions based on functional annotations such as Human Protein Ontology and Gene Ontology, and prioritizes genes based on network topology, functional scores and a path search algorithm.
Maintained by Ana Galhoz. Last updated 5 months ago.
graphandnetworknetworkpathwayssoftwaregenesignalinggenetargetsystemsbiologytranscriptomicsannotationgene-ontologygene-prioritizationhuman-phenotype-ontologyomnipathppi-networksrandom-walk-with-restartquarto
1 stars 4.30 score 4 scripts
certe-medical-epidemiology
certeprojects:A Certe R Package for Department Projects
A Certe R Package with functions to automate department projects using MS Teams, MS Planner, Shiny, R Markdown and Quarto. This package is part of the 'certedata' universe.
Maintained by Matthijs S. Berends. Last updated 5 days ago.
microsoft-azuremicrosoft-outlookmicrosoft-plannermicrosoft-teamsmicrosoft365microsoft365rquartoshinyteams
2 stars 4.13 score 1 scripts 3 dependents
matt-dray
quartostamp:RStudio Addin to Insert Quarto Helpers
An RStudio Addin to insert ('stamp') pre-written classes and divs into your Quarto documents.
Maintained by Matt Dray. Last updated 2 years ago.
hacktoberfestquartorstudio-addin
59 stars 3.47 score
kazuyanagimoto
typstcv:CV for Quarto & Typst
Provides functions to create a entry of CV for Quarto & Typst.
Maintained by Kazuharu Yanagimoto. Last updated 5 months ago.
7 stars 3.47 score 14 scripts
elianhugh
quartools:Programmatic Element Creation For Quarto Documents
Programatically generate quarto-compliant markdown elements.
Maintained by Elian Thiele-Evans. Last updated 1 years ago.
27 stars 3.13 score 3 scripts
jasonjfoster
rolltalk:Rolling and Expanding Statistics
Presentation for rolling and expanding statistics of time-series data.
Maintained by Jason Foster. Last updated 10 months ago.
algorithmspresentationquartostatistics
2 stars 2.60 score 1 scripts
wjschne
apa7:Write Documents in APA Style 7th Edition
Functions to create APA Style 7th Edition documents
Maintained by W. Joel Schneider. Last updated 2 months ago.
2.18 score 2 scriptsmatt-dray
bd2q:Convert a 'blogdown' Blog to Quarto
Takes the folder stucture and files of an old 'blogdown' blog and translates them to what's needed for a Quarto blog. Built for my own personal blog, so your mileage may vary.
Maintained by Matt Dray. Last updated 2 years ago.
2 stars 2.00 score 2 scripts
mps9506
quartoYAAC:R Interface to the 'quarto-yaac' Template
Provides convienence functions to add the 'quarto-yaac' template to an R project and includes functions for creating Latex formatted text blocks that work with the underlying document class.
Maintained by Michael Schramm. Last updated 2 years ago.
1.70 score 1 scripts