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cardinal3-vignettes

Vignettes for Cardinal3 paper

ionspattern

mi-cnn_msi

msireg-vignettes

Vignettes for installation instructions, case studies and performance metrics for the MSIreg application note.

msstats

R package - MSstats

msstats_benchmarking

Benchmarking MSstats against the most popular proteomics statistical analysis methods

msstats_testing

msstatsbig

MSstats functionality to handle large DIA datasets. Replaces standard MSstats converters with MSstatsBig converters.

msstatsconvert

Converter functions for the MSstats package

msstatsglycans

msstatslip

msstatslobd

R/Bioconductor package for limit of blanc (LOB) and limit of detection (LOD) estimation

msstatsptm

Post Translational Modification (PTM) Significance Analysis in shotgun mass spectrometry-based proteomic experiments

msstatsptm-manuscript

msstatssamplesize

Simulation tool for optimal design of high-dimensional MS-based proteomics experiment

msstatssamplesize-shiny

Shiny for MSstatsSampleSize R package

msstatsshiny

R-Shiny GUI integrated with the MSstats package family

msstatstmt

R-based package for detecting differentially abundant proteins in shotgun mass spectrometry-based proteomic experiments with tandem mass tag (TMT) labeling

msstatstmtptm

R-based package for detecting differencially abundant post translational modifications (PTM) in shotgun mass spectrometry-bsed proteomic experiments with tandem mass tag (TMT) labeling

msstatstracker

Simple Shiny apps for displaying MSstats Ecosystem usage statistics

msstatsweightedsummary

[WIP] An R package for shared peptides exploration in label-free and labeled MS experiments

sharedpeptidesapp