httpuv - HTTP and WebSocket Server Library

Provides low-level socket and protocol support for handling HTTP and WebSocket requests directly from within R. It is primarily intended as a building block for other packages, rather than making it particularly easy to create complete web applications using httpuv alone. httpuv is built on top of the libuv and http-parser C libraries, both of which were developed by Joyent, Inc. (See LICENSE file for libuv and http-parser license information.)

Last updated 1 years ago

11.77 score 2.0k packages 716 scripts 594k downloads

MassSpecWavelet - Peak Detection for Mass Spectrometry data using wavelet-based algorithms

Peak Detection in Mass Spectrometry data is one of the important preprocessing steps. The performance of peak detection affects subsequent processes, including protein identification, profile alignment and biomarker identification. Using Continuous Wavelet Transform (CWT), this package provides a reliable algorithm for peak detection that does not require any type of smoothing or previous baseline correction method, providing more consistent results for different spectra. See <doi:10.1093/bioinformatics/btl355} for further details.

Last updated 23 days ago

immunooncologymassspectrometryproteomicspeakdetection

9.07 score 8 stars 15 packages 35 scripts 3.3k downloads

MassSpecWavelet - Peak Detection for Mass Spectrometry data using wavelet-based algorithms

Peak Detection in Mass Spectrometry data is one of the important preprocessing steps. The performance of peak detection affects subsequent processes, including protein identification, profile alignment and biomarker identification. Using Continuous Wavelet Transform (CWT), this package provides a reliable algorithm for peak detection that does not require any type of smoothing or previous baseline correction method, providing more consistent results for different spectra. See <doi:10.1093/bioinformatics/btl355} for further details.

Last updated 2 years ago

immunooncologymassspectrometryproteomicspeakdetection

7.25 score 8 stars 15 packages 35 scripts

AlpsNMR - Automated spectraL Processing System for NMR

Reads Bruker NMR data directories both zipped and unzipped. It provides automated and efficient signal processing for untargeted NMR metabolomics. It is able to interpolate the samples, detect outliers, exclude regions, normalize, detect peaks, align the spectra, integrate peaks, manage metadata and visualize the spectra. After spectra proccessing, it can apply multivariate analysis on extracted data. Efficient plotting with 1-D data is also available. Basic reading of 1D ACD/Labs exported JDX samples is also available.

Last updated 23 days ago

softwarepreprocessingvisualizationclassificationcheminformaticsmetabolomicsdataimport

7.11 score 15 stars 12 scripts 269 downloads

AlpsNMR - Automated spectraL Processing System for NMR

Reads Bruker NMR data directories both zipped and unzipped. It provides automated and efficient signal processing for untargeted NMR metabolomics. It is able to interpolate the samples, detect outliers, exclude regions, normalize, detect peaks, align the spectra, integrate peaks, manage metadata and visualize the spectra. After spectra proccessing, it can apply multivariate analysis on extracted data. Efficient plotting with 1-D data is also available. Basic reading of 1D ACD/Labs exported JDX samples is also available.

Last updated 3 months ago

softwarepreprocessingvisualizationclassificationcheminformaticsmetabolomicsdataimport

7.03 score 15 stars 12 scripts

condformat - Conditional Formatting in Data Frames

Apply and visualize conditional formatting to data frames in R. It renders a data frame with cells formatted according to criteria defined by rules, using a tidy evaluation syntax. The table is printed either opening a web browser or within the 'RStudio' viewer if available. The conditional formatting rules allow to highlight cells matching a condition or add a gradient background to a given column. This package supports both 'HTML' and 'LaTeX' outputs in 'knitr' reports, and exporting to an 'xlsx' file.

Last updated 1 years ago

formattinghtmllatextablevisualisation

6.51 score 25 stars 1 packages 87 scripts 795 downloads

GCIMS - Pre-processing for GC-IMS data

A package for the analysis of ion mobility spectrometry (IMS) measurements, as well as samples from multicapillary columns coupled with IMS (MCC-IMS) and gas chromatography coupled to ion mobility spectrometry (GC-IMS). The package provides a complete workflow for the analysis, importing the data, preprocessing the spectra as well as classification and regression techniques for the modelling of the spectra. The package also includes visualization helpers, to represent topographic plots, extracted and total ion chromatograms and IMS spectra.

Last updated 3 days ago

softwarepreprocessingvisualizationclassificationcheminformaticsmetabolomicsdataimport

5.64 score 3 stars 6 scripts

sgolay - Efficient Savitzky-Golay Filtering

Smoothing signals and computing their derivatives is a common requirement in signal processing workflows. Savitzky-Golay filters are a established method able to do both (Savitzky and Golay, 1964 <doi:10.1021/ac60214a047>). This package implements one dimensional Savitzky-Golay filters that can be applied to vectors and matrices (either row-wise or column-wise). Vectorization and memory allocations have been profiled to reduce computational fingerprint. Short filter lengths are implemented in the direct space, while longer filters are implemented in frequency space, using a Fast Fourier Transform (FFT).

Last updated 2 years ago

3.54 score 7 stars 2 scripts 213 downloads

ChemometricsWithR - Chemometrics with R - Multivariate Data Analysis in the Natural Sciences and Life Sciences (2nd Edition)

Functions and scripts used in the book "Chemometrics with R - Multivariate Data Analysis in the Natural Sciences and Life Sciences", 2nd edition, by Ron Wehrens, Springer (2019).

Last updated 4 years ago

2.99 score 13 stars 15 scripts 111 downloads