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Witold Wolski's starred repositories

ProForma

HUPO-PSI Standardized peptidoform notation

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einprot

Proteomics analysis workflows

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directlfq

Fast and accurate label-free quantification for small and very large numbers of proteomes

Language:Jupyter NotebookApache-2.03600

ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to allow a continuous, easy, and controlled comparison of proteomics data analysis workflows.

Language:Jupyter NotebookApache-2.02700

oktoberfest

Rescoring and spectral library generation pipeline for proteomics.

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prolfquapp

Generating Dynamic DEA Reports with the prolfqua R Package

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prozor

Determine minimal Protein set given list of peptide protein mappings and various weighting functions

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SLAW

Scalable and self-optimizing processing workflow for untargeted LC-MS

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prolfqua

Differential Expression Analysis tool box R lang package for omics data

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Patpat

Patpat: A Python-based framework for searching public proteomics datasets

Language:PythonApache-2.0600

MzXML.jl

Load mass spectrometry mzXML files

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LFQb

Benchmarking label-free quantification (LFQ) in bottom-up proteomics by DIA LC-MS and DIA-NN

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amica

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

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DIAgui

An interactive shiny app for processing DIA-nn output (filtering, MaxLFQ, Top3, iBAQ, etc.)

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bfabricPy

API and commad line tools for b-fabric

Language:PythonGPL-3.0400

DiaNN

DIA-NN - a universal automated software suite for DIA proteomics data analysis.

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fastr

A high-performance implementation of the R programming language, built on GraalVM.

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mml-book.github.io

Companion webpage to the book "Mathematics For Machine Learning"

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BDA_R_demos

Bayesian Data Analysis demos for R

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BDA_course_Aalto

Bayesian Data Analysis course at Aalto

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covid19-cases-switzerland

Data from BAG Tweets made useful.

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COVID-19

COVID-19 Italia - Monitoraggio situazione

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prora

running ora or gsea on lists of proteinidentifiers

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recmap

An algorithm to draw rectangular statistical cartograms - CRAN package

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Statistical_Rethinking_with_brms_ggplot2_and_the_tidyverse

The bookdown version lives here: https://bookdown.org/content/3890

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mzLib

Library for mass spectrometry projects

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handson-ml

⛔️ DEPRECATED – See https://github.com/ageron/handson-ml3 instead.

Language:Jupyter NotebookApache-2.02514000

rags2ridges

Get ridge or die trying - 2 cents

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IBS.channel2017-NetworksCourse

Materials for the *rags2ridges* part of the IBS Channel Conference 2017 Networks Course

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bfabricShiny

Manage life sciences data using R and b-fabric - a WSDL/REST interface and a tool box; main focus on MS data

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