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 03 Dec. 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

r2resize  
In-Text Resize for Images, Tables and Fancy Resize Containers in 'shiny', 'rmarkdown' and 'quarto' Documents
Automatic resizing toolbar for containers, images and tables. Various resizable or expandable contai ...
Download / Learn more Package Citations See dependency  
EDOtrans  
Euclidean Distance-Optimized Data Transformation
A data transformation method which takes into account the special property of scale non-invariance w ...
Download / Learn more Package Citations See dependency  
CRANsearcher  
RStudio Addin for Searching Packages in CRAN Database Based on Keywords
One of the strengths of R is its vast package ecosystem. Indeed, R packages extend from visualizatio ...
Download / Learn more Package Citations See dependency  
FSInteract  
Fast Searches for Interactions
Performs fast detection of interactions in large-scale data using the method of random intersection ...
Download / Learn more Package Citations See dependency  
donut  
Nearest Neighbour Search with Variables on a Torus
Finds the k nearest neighbours in a dataset of specified points, adding the option to wrap certain ...
Download / Learn more Package Citations See dependency  
telemac  
R Interface to the TELEMAC Model Suite
An R interface to the TELEMAC suite for modelling of free surface flow. This includes methods for m ...
Download / Learn more Package Citations See dependency  

23,310

R Packages

200,798

Dependencies

63,203

Author Associations

23,278

Publication Badges

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