Tools   Select Another Resource Report Type

https://cran.r-project.org/web/packages/geomorph/index.html

Software package for performing all stages of geometric morphometric shape analysis of landmark points and curves in 2-and-3-dimensions as well as 3D surfaces in the R statistical computing environment.

Proper citation: geomorph (RRID:SCR_016482) Copy   

•   Source: SciCrunch Registry

https://CRAN.R-project.org/package=pavo

Software R package for perceptual analysis, visualization and organization of spectral colour data. Software framework for parsing, analyzing and organizing colour from spectral data. Used for spectral and spatial analysis of color patterns.

Proper citation: pavo (RRID:SCR_019123) Copy   

•   Source: SciCrunch Registry

https://cran.r-project.org/web/packages/celltrackR/index.html

Software R package to analyze immune cell migration data. Supports pipeline for track analysis by providing methods for data management, quality control, extracting and visualizing migration statistics, clustering tracks, and simulating cell migration.Available measures include displacement, confinement ratio, autocorrelation, straightness, turning angle, and fractal dimension. Measures can be applied to entire tracks, steps, or subtracks with varying length.

Proper citation: celltrackR (RRID:SCR_021021) Copy   

•   Source: SciCrunch Registry

https://www.rdocumentation.org/packages/DGCA/versions/1.0.2

Software R package to perform differential gene correlation analysis. Performs differential correlation analysis on input matrices, with multiple conditions specified by design matrix.

Proper citation: Differential Gene Correlation Analysis (RRID:SCR_020964) Copy   

•   Source: SciCrunch Registry

https://bwhbioinfo.shinyapps.io/powerEQTL/

Software R package and shiny application for sample size and power calculation of bulk tissue and single-cell eQTL analysis.

Proper citation: powereQTL (RRID:SCR_021653) Copy   

•   Source: SciCrunch Registry

https://rdrr.io/cran/mvabund/man/mvabund-package.html

Software R package for multivariate microbiome analysis. Statistical methods for analysing multivariate abundance data.

Proper citation: mvabund (RRID:SCR_022713) Copy   

•   Source: SciCrunch Registry

https://CRAN.R-project.org/package=eulerr

Software package to generate area proportional Euler diagrams using numerical optimization that display set relationships (intersections, unions, and disjoints) with circles or ellipses. Area Proportional Euler and Venn Diagrams with Ellipses.

Proper citation: eulerr (RRID:SCR_022753) Copy   

•   Source: SciCrunch Registry

https://CRAN.R-project.org/package=meta4diag

Software R package for bivariate meta analysis of diagnostic test studies using integrated nested Laplace approximation with INLA.

Proper citation: meta4diag (RRID:SCR_023024) Copy   

•   Source: SciCrunch Registry

https://immunarch.com/

Software R package for exploration of single-cell and bulk T-cell/antibody immune repertoires. Framework for bioinformatics exploratory analysis of bulk and single-cell T-cell receptor and antibody repertoires.

Proper citation: immunarch (RRID:SCR_023089) Copy   

•   Source: SciCrunch Registry

https://CRAN.R-project.org/package=webchem

Open source software package for R programming language that is used to acquire chemical information from online data sources. Package contains functions that allow programmer to interact with webpages and APIs to retrieve chemical information.

Proper citation: webchem (RRID:SCR_017684) Copy   

•   Source: SciCrunch Registry

https://CRAN.R-project.org/package=biomod2

Software R package for species distribution modeling, calibration and evaluation, ensemble of models, ensemble forecasting and visualization.

Proper citation: biomod2 (RRID:SCR_018246) Copy   

•   Source: SciCrunch Registry

https://github.com/nboley/idr

Software R package to measure reproducibility of findings identified from replicate experiments and to provide highly stable thresholds based on reproducibility.

Proper citation: IDR (RRID:SCR_017237) Copy   

•   Source: SciCrunch Registry

https://cran.r-project.org/web/packages/knitr/index.html

Software R package for dynamic report generation using Literate Programming techniques. Comprehensive software tool for reproducible research in R.

Proper citation: knitr (RRID:SCR_018533) Copy   

•   Source: SciCrunch Registry

https://github.com/hms-dbmi/EHRtemporalVariability

Software R package for delineating temporal dataset shifts in electronic health records. Functions to delineate temporal dataset shifts in electronic health records through projection and visualization of dissimilarities among data temporal batches.Enables exploration and identification of dataset shifts, contributing to broadly examine and repurpose large, longitudinal datasets. Used to help ensure reliable data reuse to biomedical data users.

Proper citation: EHRtemporalVariability (RRID:SCR_018663) Copy   

•   Source: SciCrunch Registry

https://cran.r-project.org/web/packages/readxl/index.html

Software R package to import excel files into R. Has no external dependencies for easy installment and use on all operating systems. Designed to work with tabular data.

Proper citation: readxl (RRID:SCR_018083) Copy   

•   Source: SciCrunch Registry

https://cran.r-project.org/package=precrec

Software R package for fast and accurate precision recall and ROC curve calculations. Calculates accurate precision recall and Receiver Operator Characteristics curves.

Proper citation: precrec (RRID:SCR_018659) Copy   

•   Source: SciCrunch Registry

http://had.co.nz/reshape/

Software R package for flexibly restructuring and aggregating data.

Proper citation: reshape (RRID:SCR_018983) Copy   

•   Source: SciCrunch Registry

https://CRAN.R-project.org/package=vioplot

Software R package for extensive customization of violin plots. Violin plot is combination of box plot and kernel density plot.

Proper citation: vioplot (RRID:SCR_019293) Copy   

•   Source: SciCrunch Registry

https://CRAN.R-project.org/package=maps

Software R package to draw geographical maps.

Proper citation: maps (RRID:SCR_019296) Copy   

•   Source: SciCrunch Registry

https://cran.r-project.org/package=eHDPrep

Software R package provides quality control and semantic enrichment tools for preparation of health datasets. Enables semantic enrichment of dataset where metavariables are discovered from relationships between input variables determined from user provided ontologies.

Proper citation: eHDprep (RRID:SCR_023401) Copy   

•   Source: SciCrunch Registry