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]
First Published: 2022-11-30
Latest Update: 2023-09-01
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 04 Apr. 2025.
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
03/0503/0603/0703/0803/0903/1003/1103/1203/1303/1403/1503/1603/1703/1803/1903/2003/2103/2203/2303/2403/2503/2603/2703/2803/2903/3003/3104/0104/02Downloads for CRMetrics051015202530354045505560TrendBars

Today's Hot Picks in Authors and Packages

Rexperigen  
R Interface to Experigen
Provides convenience functions to communicate with an Experigen server: Experigen ( ...
Download / Learn more Package Citations See dependency  
quickcode  
Quick and Essential 'R' Tricks for Better Scripts
The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to im ...
Download / Learn more Package Citations See dependency  
metaprotr  
Metaproteomics Post-Processing Analysis
Set of tools for descriptive analysis of metaproteomics data generated from high-throughput mass ...
Download / Learn more Package Citations See dependency  
PakPMICS2014HH  
Multiple Indicator Cluster Survey (MICS) 2014 Household Questionnaire Data for Punjab, Pakistan
Provides data set and function for exploration of Multiple Indicator Cluster Survey (MICS) 2014 Hous ...
Download / Learn more Package Citations See dependency  
perryExamples  
Examples for Integrating Prediction Error Estimation into Regression Models
Examples for integrating package 'perry' for prediction error estimation into regression models. ...
Download / Learn more Package Citations See dependency  
RMixpanel  
API for Mixpanel
Provides an interface to many endpoints of Mixpanel's Data Export, Engage and JQL API. The R functio ...
Download / Learn more Package Citations See dependency  

23,990

R Packages

207,311

Dependencies

64,809

Author Associations

23,991

Publication Badges

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