Search Results for "workflow"
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Showing 18 open source projects for "workflow"
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pointblank
Data quality assessment and metadata reporting for data frames
With the pointblank package it’s really easy to methodically validate your data whether in the form of data frames or as database tables. On top of the validation toolset, the package gives you the means to provide and keep up-to-date with the information that defines your tables. For table validation, the agent object works with a large collection of simple (yet powerful!) validation functions. We can enable much more sophisticated validation checks by using custom expressions, segmenting... -
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RStudio Cheatsheets
Curated collection of official cheat sheets for data science tools
The cheatsheets repository from RStudio is a curated collection of official cheat sheets for R, RStudio, the tidyverse, Shiny, and related data science tools. Each cheat sheet is a single (or double) page PDF that condenses important syntax, functions, workflows, and best practices into a visually organized format ideal for quick reference. The repository contains source files (R Markdown or LaTeX) that generate the cheat sheets, version history, and metadata (title, author, description) for... -
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vitae
R Markdown Résumés and CVs
vitae is an R package that streamlines resume and CV creation via R Markdown. It includes a collection of LaTeX and HTML templates along with helper functions to dynamically populate content from data sources such as ORCID or spreadsheets. -
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targets
Function-oriented Make-like declarative workflows for R
The targets package is a pipeline / workflow management tool in R, designed to coordinate multi‐step computational workflows in data science / statistics. It tracks dependencies between “targets” (computational steps), skips steps whose upstream data or code hasn’t changed, supports parallel computation, branching (dynamic generation of sub‐targets), file format abstractions, and encourages reproducible and efficient analyses. It’s something like GNU Make for R, but more integrated. Skipping... -
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janitor
Simple tools for data cleaning in R
janitor provides simple, convenient tools for data cleaning, formatting, and exploration in R. It is especially useful for cleaning messy data frames, removing duplicates, formatting column names, and producing frequency tables in a tidy workflow. -
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ggstatsplot
Enhancing {ggplot2} plots with statistical analysis
{ggstatsplot} is an extension of {ggplot2} package for creating graphics with details from statistical tests included in the information-rich plots themselves. In a typical exploratory data analysis workflow, data visualization and statistical modeling are two different phases: visualization informs modeling, and modeling in its turn can suggest a different visualization method, and so on and so forth. Bayesian hypothesis-testing. The central idea of {ggstatsplot} is simple: combine these two... -
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clusterProfiler
A universal enrichment tool for interpreting omics data
clusterProfiler is an R/Bioconductor package that provides a unified workflow for functional enrichment analysis to interpret high-throughput omics results. It supports both over-representation analysis and gene set enrichment analysis, letting you work with unranked gene lists or ranked statistics from differential pipelines. The package connects to multiple knowledge bases—such as Gene Ontology, KEGG, Reactome, Disease Ontology, MeSH and others—through a consistent interface so you can query... -
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Statistical Rethinking 2024
This course teaches data analysis
The 2024 repository is the most recent version of the course, reflecting ongoing refinements in pedagogy, statistical modeling techniques, and coding practices. It provides updated notebooks, R scripts, and model examples, some streamlined and restructured compared to previous years. The 2024 repo also highlights the transition toward more robust Stan models and integration with newer Bayesian workflow practices, continuing to emphasize accessibility for learners while modernizing the tools... -
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Amplicon_Sequencing_Worfklow
Analyzing amplicon data from sequences to stats
This is a collection of scripts and instructions on how to analyzing amplicon sequence data (i.e., 16S, ITS2, & other marker genes). I created this workflow to create a consistent set of methods for analyzing amplicon sequence data, from when you first receive the sequence data to statistical analyses & data visualization. All you need is to have the latest version of R installed, some experience with the command line & shell, and enough memory to run all of the programs. There are also... -
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generativeart
Create Generative Art with R
.... A small helper sets up a simple directory scaffold for “everything” versus “handpicked” images and a logfile folder, encouraging a tidy, iterative workflow. Rendering is performed with ggplot2, and users can select coordinate systems (Cartesian or polar), foreground/background colors, number of images to generate, and output format (PNG by default with other devices available). -
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R4DS (R for Data Science)
R for data science: a book
“R for Data Science” (r4ds) is the source material (book + examples) by Hadley Wickham et al., intended to teach data science using R and the tidyverse. It covers the workflow from importing data, tidying, transforming, visualizing, modelling, communicating results, and programming in R. The repository contains the source files (Quarto / RMarkdown), example datasets, visualizations, exercises, and all content needed to build the book. Includes many example datasets, diagrams, code samples... -
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LBopsis
THERE IS A PROBLEM WITH SOME OUTDATED LIBRARIES Work in progress!
Semi-automated workflow to quantify root bending and elongation for scanned pictures of Arabidopsis thaliana -
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Reproducible-research
A Reproducible Data Analysis Workflow with R Markdown, Git, Make, etc.
In this tutorial, we describe a workflow to ensure long-term reproducibility of R-based data analyses. The workflow leverages established tools and practices from software engineering. It combines the benefits of various open-source software tools including R Markdown, Git, Make, and Docker, whose interplay ensures seamless integration of version management, dynamic report generation conforming to various journal styles, and full cross-platform and long-term computational reproducibility... -
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posterdown
Use RMarkdown to generate PDF Conference Posters via HTML
Welcome to Posterdown! This is my attempt to provide a semi-smooth workflow for those who wish to take their RMarkdown skills to the conference world. Many creature comforts from RMarkdown are available in this package such as Markdown section notation, figure captioning, and even citations like this one (Allaire, Xie, McPherson, et al. 2018). The rest of this example poster will show how you can insert typical conference poster features into your own document. Posterdown was created as a proof... -
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RNAseq Tutorial
Informatics for RNA-seq: A web resource for analysis on the cloud
... is deprecated, but still maintains content for those wishing to follow the original published workflow. Includes instruction on cloud computing basics and using cloud environments for large data processing. -
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Data Science Specialization
Course materials for the Data Science Specialization on Coursera
... topics such as R programming, data cleaning, exploratory data analysis, statistical inference, regression models, machine learning, and practical data science projects. By providing centralized resources, the repo makes it easier for students to practice concepts and replicate examples from the curriculum. It also offers a structured view of how multiple disciplines—programming, statistics, and applied data analysis—come together in a professional workflow. -
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ProgrammingAssignment2
Repository for Programming Assignment 2 for R Programming on Coursera
... for matrices via two functions, one to construct the cache-aware object and another to compute or retrieve the cached inverse. The instructions emphasize using solve for inversion and assuming that the supplied matrix is always invertible. The repository outlines the workflow for forking, editing the provided R stub, committing your solution, and submitting your repository URL as the final deliverable. -
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ExData Plotting1
Plotting Assignment 1 for Exploratory Data Analysis
... handling due to its size of more than 2 million rows and coded missing values. By processing the date and time fields into proper formats, it becomes possible to generate clear time-series plots of energy usage. The repository demonstrates effective exploratory data analysis practices in R with a reproducible workflow for transforming raw data into visual insights.
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