Name: Miguel Cosenza-Contreras
Type: User
Company: Universitätsklinikum Freiburg
Bio: I am a biologist with interest in proteomics, bioinformatics and data science. My main experience is related to the use of R for proteomics data analyses.
Location: Freiburg, Germany
Miguel Cosenza-Contreras's Projects
This repo will contain scripts, functions and snippets of code useful for processing and analyzing different types of proteomics data
Conda recipes for the bioconda channel.
This repo is to share all the code I will use during the Course course, Exploratory Data Analysis with R
Course materials for the Data Science Specialization: https://www.coursera.org/specialization/jhudatascience/1
The Leek group guide to data sharing
This repo would contain the script for deleting junk after MaxQuant search
Short script summarizing the workflow for pre-processing and differential analysis of LFQ MaxQuant data in MSsstats
some of my dotfiles
Creating package to draw proteins from Uniprot API
Repo containing scripts and functionts to run limma::roast enrichment analyses
Course-John Hopkins Practical Machine Learning Course. Final Project
First project for the course of exploratory data analysis
Pipeline for extracting and exploring nterminomics data from FragPipe and TMT-Integrator
Annotation and processing of peptides from FragPipe search results
Data processing and analysis of database search and quant proteomics results from GBM patients - Initial vs Recurrent conditions
Workspace for quiz 2 of the Coursera Course
Scripts and functions to run Limma-roast
Just to share random stuff about what I'll do with my GitHub account
A simple interface to the Human Protein Atlas
This repo will contain scripts to execute limma and then apply multiple testing correction on a subset of features (i.e. semi-tryptic peptides; ecoli proteins, etc)
Script for executing a general F-test on a protein/gene expression dataset with > 2 groups
This repo contains a small script for generating a report after simple paired DE with limma
This repo will contain a guideline document for the execution of a differential expression analysis with limma including a patient random effect in the model
This repo contains a script for mapping peptide sequences arousing from database search algorithms to their corresponding proteins in a fasta file
This is a repo to practice Markdown
simplified version of fragterminomics
This repo would contain a script for transforming the `msms.txt` output from MaxQuant into a `.tab` file that can be used as an input for Percolator