Other packages > Find by keyword >

SPUTNIK  

Spatially Automatic Denoising for Imaging Mass Spectrometry Toolkit
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("SPUTNIK", "1.4.2")



Attach the package and use:
library("SPUTNIK")
Maintained by
Paolo Inglese
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2018-02-19
Latest Update: 2023-11-07
Description:
Set of tools for peak filtering of mass spectrometry imaging data based on spatial distribution of signal. Given a region-of-interest, representing the spatial region where the informative signal is expected to be localized, a series of filters determine which peak signals are characterized by an implausible spatial distribution. The filters reduce the dataset dimension and increase its information vs noise ratio, improving the quality of the unsupervised analysis results, reducing data dimension and simplifying the chemical interpretation. The methods are described in Inglese P. et al (2019) <doi:10.1093/bioinformatics/bty622>.
How to cite:
Paolo Inglese (2018). SPUTNIK: Spatially Automatic Denoising for Imaging Mass Spectrometry Toolkit. R package version 1.4.2, https://cran.r-project.org/web/packages/SPUTNIK. Accessed 07 Nov. 2024.
Previous versions and publish date:
1.0.0 (2018-02-19 10:17), 1.0.1 (2018-02-23 10:14), 1.0.2 (2018-03-30 14:16), 1.0.3.1 (2018-07-20 12:50), 1.0.3.2 (2018-08-15 23:40), 1.0.3.3 (2018-08-22 14:40), 1.0.3.4 (2018-09-18 15:50), 1.0.3 (2018-07-20 12:40), 1.0.4.1 (2018-10-08 15:50), 1.1.1 (2018-10-25 23:50), 1.1.2 (2019-04-16 22:32), 1.1 (2018-10-23 13:50), 1.3.1 (2021-02-01 11:00), 1.3.2 (2021-03-23 01:50), 1.3.3 (2021-05-18 01:10), 1.3 (2020-03-23 15:20), 1.4.1 (2022-11-24 11:00), 1.4 (2021-10-19 00:30)
Other packages that cited SPUTNIK R package
View SPUTNIK citation profile
Other R packages that SPUTNIK depends, imports, suggests or enhances
Complete documentation for SPUTNIK
Functions, R codes and Examples using the SPUTNIK R package
Some associated functions: CSRPeaksFilter . NMI . PCAImage-msi.dataset-method . SSIM . applyPeaksFilter-msi.dataset-method . binKmeans-msi.dataset-method . binKmeans2-msi.dataset-method . binOtsu-ms.image-method . binSupervised-msi.dataset-method . bladderMALDIRompp2010 . closeImage-ms.image-method . countPixelsFilter . createPeaksFilter . getIntensityMat-msi.dataset-method . getMZ-msi.dataset-method . getShapeMSI-msi.dataset-method . gini.index . globalPeaksFilter . invertImage-ms.image-method . ms.image-class . msImage . msi.dataset-class . msiDataset . normIntensity-msi.dataset-method . numDetectedMSI-msi.dataset-method . ovarianDESIDoria2016 . plot . refImageBinaryKmeans . refImageBinaryKmeansMulti . refImageBinaryOtsu . refImageBinarySVM . refImageContinuous . removeSmallObjects-ms.image-method . scatter.ratio . smoothImage-ms.image-method . spatial.chaos . splitPeaksFilter . totalIonCountMSI-msi.dataset-method . varTransform-msi.dataset-method . 
Some associated R codes: add_rem_border.R . binary_refimg.R . construct_funcs.R . continuous_refimg.R . data_funcs.R . filter_count.R . filter_csr.R . filter_global.R . filter_split.R . generic_funcs.R . graph_funcs.R . is_funcs.R . ms.image_class.R . ms.image_methods.R . msi.dataset_class.R . msi.dataset_funcs.R . msi.dataset_methods.R . mz_funcs.R . sparseness_funcs.R .  Full SPUTNIK package functions and examples
Downloads during the last 30 days
Get rewarded with contribution points by helping add
Reviews / comments / questions /suggestions ↴↴↴

Today's Hot Picks in Authors and Packages

bacondecomp  
Goodman-Bacon Decomposition
Decomposition for differences-in-differences with variation in treatment timing from Goodman-Bacon ...
Download / Learn more Package Citations See dependency  
con2aqi  
Calculate the AQI from Pollutant Concentration
To calculate the AQI (Air Quality Index) from pollutant concentration data. O3, PM2.5, PM10, CO, SO ...
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  
robregcc  
Robust Regression with Compositional Covariates
We implement the algorithm estimating the parameters of the robust regression model with composition ...
Download / Learn more Package Citations See dependency  

23,092

R Packages

198,677

Dependencies

62,675

Author Associations

23,089

Publication Badges

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