Other packages > Find by keyword >

CRMetrics  

Cell Ranger Output Filtering and Metrics Visualization
View on CRAN: Click here


Download and install CRMetrics package within the R console
Install from CRAN:
install.packages("CRMetrics")

Install from Github:
library("remotes")
install_github("cran/CRMetrics")

Install by package version:
library("remotes")
install_version("CRMetrics", "0.3.2")



Attach the package and use:
library("CRMetrics")
Maintained by
Rasmus Rydbirk
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2022-11-30
Latest Update: 2024-11-08
Description:
Sample and cell filtering as well as visualisation of output metrics from 'Cell Ranger' by Grace X.Y. Zheng et al. (2017) . 'CRMetrics' allows for easy plotting of output metrics across multiple samples as well as comparative plots including statistical assessments of these. 'CRMetrics' allows for easy removal of ambient RNA using 'SoupX' by Matthew D Young and Sam Behjati (2020) or 'CellBender' by Stephen J Fleming et al. (2022) . Furthermore, it is possible to preprocess data using 'Pagoda2' by Nikolas Barkas et al. (2021) or 'Seurat' by Yuhan Hao et al. (2021) followed by embedding of cells using 'Conos' by Nikolas Barkas et al. (2019) . Finally, doublets can be detected using 'scrublet' by Samuel L. Wolock et al. (2019) or 'DoubletDetection' by Gayoso et al. (2020) . In the end, cells are filtered based on user input for use in downstream applications.
How to cite:
Rasmus Rydbirk (2022). CRMetrics: Cell Ranger Output Filtering and Metrics Visualization. R package version 0.3.2, https://cran.r-project.org/web/packages/CRMetrics. Accessed 09 Mar. 2026.
Previous versions and publish date:
0.2.2 (2022-11-30 12:40), 0.2.3 (2022-12-14 12:30), 0.3.0 (2023-09-01 11:00)
Other packages that cited CRMetrics R package
View CRMetrics citation profile
Other R packages that CRMetrics depends, imports, suggests or enhances
Complete documentation for CRMetrics
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

Rgb  
The R Genome Browser
Classes and methods to efficiently handle (slice, annotate, draw ...) genomic features (such as gene ...
Download / Learn more Package Citations See dependency  
ggblanket  
Simplify 'ggplot2' Visualisation
Simplify 'ggplot2' visualisation with 'ggblanket' wrapper functions. ...
Download / Learn more Package Citations See dependency  
rzentra  
Client for the 'ZENTRA Cloud' API
Provides functionality to read settings, statuses and readings of weather stations from the 'ZENTRA ...
Download / Learn more Package Citations See dependency  
pooling  
Fit Poolwise Regression Models
Functions for calculating power and fitting regression models in studies where a biomarker is measur ...
Download / Learn more Package Citations See dependency  
nextGenShinyApps  
Craft Exceptional 'R Shiny' Applications and Dashboards with Novel Responsive Tools
Nove responsive tools for designing and developing 'Shiny' dashboards and applications. The scripts ...
Download / Learn more Package Citations See dependency  

26,293

R Packages

225,784

Dependencies

70,376

Author Associations

26,294

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA