proteomics-data-analysis

The SomaDataIO package loads the SomaLogic, Inc. proprietary data file, called an ADAT file ('*.adat'). It also provides auxiliary functions for extracting and manipulating relevant information from an ADAT, as well as exporting a modified ADAT to file.

Shiny app for making and annotating Volcano plots

amica: an interactive and user-friendly web-based platform for the analysis of proteomics data

R package for protein Label-Free Quantification

Inspecting the quality of isobaric labeling proteomic data in a Jupyter notebook. Data output from Proteome Discoverer.

Code accompanying batch effects processing workflow for "omic" data, mainly targeted for proteomics

a molecular solutions toolbox for molecular biologists.

Performance of Julia and Python for reading and matching mass spectrometry data

In Silico Trypsin/Lys-C Clevage Site Prediction

Exploring correlations in an isobaric labeling mass spectrometry-based proteomic data set

Proteomics development kit focused on top-down analysis

Proteomics analysis in R

An R script to fit acquired LC-MS peak data to a log-normal function.

The Subcelloc script provides an easy way to determine the subcellular localization of a large datasets.

Codes from study on characterization of physiology of Anaerobutyricum and related species

R package that visualizes MaxQuant output of activity-based protein profiling experiments.

Custom analysis of in vitro circadian proteomics and phosphoproteomics using multiple sets of 10plex TMT with two genotypes

R/DukeProteomicsSuite: A collection of Proteomic Energetic Methods designed to work as a pipeline taking MS ProteomeDiscoverer (v. 2.3) output (TMT10plex) directly into publication quality figures

Extract the identified peptides and proteins from spectral library search of DIA proteomic data in Skyline

Some of the analytical processes and tools we use to provide rigorous and actionable results to our clients.