educhicano's repositories
MetaboAnalystR
R package for MetaboAnalyst
AnIntro2PWA4Metabolomics
A workshop introducing Pathway Analysis for Metabolomics
TurboOmics
Next.js application for Proteomics and Metabolomics integration implemented in TurboPutative
directlfq
Fast and accurate label-free quantification for small and very large numbers of proteomes
MLwR
Machine Learning with R
POMAShiny
:apple: Web-based User-friendly Workflow for Metabolomics and Proteomics Data Analysis
protein-coverage-summarizer
Computes the percent of the residues in each protein sequence that have been identified, based on a list of identified peptides. A graphical user interface (GUI) is provided to allow the user to select the input files, set the options, and browse the coverage results.
alphapeptstats
Python Package for the downstream analysis of label-free mass-spectrometry-based proteomics data
MOFA2_tutorials
MOFA2 Tutorials
MSIr
MSIr: Automatic Registration Service for Mass Spectrometry Imaging and Histology
phantasus
Visual exploratory analysis of gene expression data
handson-ml3
A series of Jupyter notebooks that walk you through the fundamentals of Machine Learning and Deep Learning in Python using Scikit-Learn, Keras and TensorFlow 2.
PDD-shiny
Processing of DIA-NN Data
pydiaid
An open-source Python package for dia-PASEF methods with Automated Isolation Design (py_diAID) from the Mann Labs at the Max Planck Institute of Biochemistry.
MSstats-Shiny
Shiny for MSstats and MSstatsTMT
MetaboAnnotationTutorials
Examples and tutorials for the MetaboAnnotation, MetaboCoreUtils and CompoundDb R packages
Cardinal-flow
User manual for the data flow developed in R with the Cardinal analysis package and its respective user interface.
UpSetR
An R implementation of the UpSet set visualization technique published by Lex, Gehlenborg, et al..
M2aia
Mass spectrometry imaging applications for interactive analysis in MITK (M²aia)
MassBank-data
Official repository of open data MassBank records
MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
HiTMaP
An R package of High-resolution Informatics Toolbox for Maldi-imaging Proteomics
DiaNN
DIA-NN - a fast and easy to use tool for processing data-independent acquisition (DIA) proteomics data
MSstats_labelfree_preprocessing
This repo will contain scripts, sample reports and other resources related to the use of MSstats for preprocessing and normalization of proteomics data
NormalyzerDE
Tools for normalization, evaluation of outliers, technical biases and batch effects and differential expression analysis.
GettingStartedWithTensorFlow2
Assignments from the Getting Started With TensorFlow 2 course from Imperial College London