Brings Orbitrap mass spectrometry data to life; multi-platform, fast and colorful R package
a Windows/Linux/MacOSX x64 platform
You can download and install the current R package.
run R (>= 4.0) and type
# install required packages
pkgs <- c('dplyr', 'hexbin', 'protViz', 'RSQLite', 'scales', 'tidyr', 'tidyverse', 'shiny')
pkgs <- pkgs[(!pkgs %in% unique(installed.packages()[,'Package']))]
if(length(pkgs) > 0){install.packages(pkgs)}
install rawDiag
install.packages('http://fgcz-ms.uzh.ch/~cpanse/rawDiag_0.0.41.tar.gz', repo=NULL)
it should run out of the box. A possible first code snippet is below
library(rawDiag)
(rawfile <- file.path(path.package(package = 'rawDiag'), 'extdata', 'sample.raw'))
system.time(RAW <- read.raw(file = rawfile))
dim(RAW)
summary(RAW)
PlotScanFrequency(RAW)
# read the help page
browseVignettes("rawDiag")
After Install please send us an Email, SUBJECT rawDiag package
.
What kind of instrument data do you use?
If you still have problems, please let us know via Email, SUBJECT request help rawDiag package
.
Output of R's function sessionInfo()
removed data used in our initial JPR publication (slim)
refactored read.raw.info
some code cosmetics for depreciated dplyr
methods
Thank you for your interest in the rawDiag package.
please use the build package.
If you accept the Thermo License agreement
https://github.com/fgcz/rawDiag/blob/master/inst/docker/ThermoRawFileReader/RawFileReaderLicense.doc
a Windows/Linux/MacOSX x64 platform
You can download and install the current R package.
run R (>= 4.0) and type
# install required packages
pkgs <- c('dplyr', 'hexbin', 'protViz', 'RSQLite', 'scales', 'tidyr', 'tidyverse', 'shiny')
pkgs <- pkgs[(!pkgs %in% unique(installed.packages()[,'Package']))]
if(length(pkgs) > 0){install.packages(pkgs)}
install rawDiag
install.packages('http://fgcz-ms.uzh.ch/~cpanse/rawDiag_0.0.38.tar.gz', repo=NULL)
it should run out of the box. A possible first code snippet is below
library(rawDiag)
(rawfile <- file.path(path.package(package = 'rawDiag'), 'extdata', 'sample.raw'))
system.time(RAW <- read.raw(file = rawfile))
dim(RAW)
summary(RAW)
PlotScanFrequency(RAW)
# read the help page
browseVignettes("rawDiag")
After Install please send us an Email, SUBJECT rawDiag package
.
What kind of instrument data do you use?
If you still have problems, please let us know via Email, SUBJECT request help rawDiag package
.
Output of R's function sessionInfo()
removed data used in our initial JPR publication
refactored read.raw.info
version 0.0.34
Thank you for your interest in the rawDiag package.
please use the build package.
If you accept the Thermo License agreement
https://github.com/fgcz/rawDiag/blob/master/inst/docker/ThermoRawFileReader/RawFileReaderLicense.doc
You can download and install the current R package.
run R (>= 3.5.1) and type
# install required packages
pkgs <- c('dplyr', 'hexbin', 'protViz', 'RSQLite', 'scales', 'tidyr', 'tidyverse', 'shiny')
pkgs <- pkgs[(!pkgs %in% unique(installed.packages()[,'Package']))]
if(length(pkgs) > 0){install.packages(pkgs)}
install.packages('http://fgcz-ms.uzh.ch/~cpanse/rawDiag_0.0.34.tar.gz', repo=NULL)
it should run out of the box. A possible first code snippet is below
library(rawDiag)
(rawfile <- file.path(path.package(package = 'rawDiag'), 'extdata', 'sample.raw'))
system.time(RAW <- read.raw(file = rawfile))
dim(RAW)
summary(RAW)
PlotScanFrequency(RAW)
# read the help page
?read.raw
After Install please send us an Email, SUBJECT rawDiag package
.
What kind of instrument data do you use?
If you still have problems, please let us know via Email, SUBJECT request help rawDiag package
.
version 0.0.3
zip rawDiag.zip rawDiag.Rnw rawDiag.tex rawDiag.bib graphics/*