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Post Translational Modification (PTM) Significance Analysis in shotgun mass spectrometry-based proteomic experiments
RNA-seq workflow using STAR and DESeq2
Custom wrappers for recurring MPUSP Snakemake rules
HemTools: a collection of NGS pipelines and bioinformatic analyses
Software for the visualization of sequence-function relationships
Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)
pyOpenMS readthedocs documentation, additional utilities, addons, scripts, and examples.
Python library for processing (tandem) mass spectrometry data and for computing spectral similarities.
Pyteomics is a collection of lightweight and handy tools for Python that help to handle various sorts of proteomics data. Pyteomics provides a growing set of modules to facilitate the most common t…
App for generating QR codes with GitHub logo and export to SVG/PNG/JPEG/WEBP format
Folder / directory structure options and naming conventions for software projects
GitHub special files and paths, such as README, LICENSE, .github, docs, dependabot, workflows.
Fast-ish (and correct!) quantile normalization in Python.
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
A cross-platform proteomics data analysis suite
Software to identify and map RNA modifications via LC-MS/MS
DIA-NN - a universal automated software suite for DIA proteomics data analysis.
Pipeline for particle picking in cryo-electron microscopy images using convolutional neural networks trained from positive and unlabeled examples. Also featuring micrograph and tomogram denoising w…
In probability theory and information theory, the mutual information of two random variables is a quantity that measures the mutual dependence of the two random variables. This script performs MI o…
Python implementation of mutual information calculation using B-spline from Daub et. al.
The Proteomics sample metadata: Standard for experimental design annotation in proteomics datasets
Joint sequence and structure generation with RoseTTAFold sequence space diffusion
A simple and lightweight python client for iPTMnet database