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2018-03-06-ibioic

Teaching materials for 6-7th March 2018 delivery of introductory bioinformatics training course for IBioIC.

30-seconds-of-python

Short Python code snippets for all your development needs

alphapept

A modular, python-based framework for mass spectrometry. Powered by nbdev.

approachingalmost

Approaching (Almost) Any Machine Learning Problem

awesome-mass-spectrometry-ml

Awesome papers and codes list of analytical chemistry-related deep learning methods

biopython

Official git repository for Biopython (originally converted from CVS)

colossalai

Making large AI models cheaper, faster and more accessible

cosmosr

COSMOS (Causal Oriented Search of Multi-Omic Space) is a method that integrates phosphoproteomics, transcriptomics, and metabolomics data sets.

createkeggdb

Create KEGG.db Package

ebfc

A novel enzyme-based functional correlations algorithm of metabolome-microbiome

elmaven

LC-MS data processing tool for large-scale metabolomics experiments.

gwa_tutorial

A comprehensive tutorial about GWAS and PRS

liquid

Software tool for identifying lipids in LC-MS/MS-based lipidomics data

massformer

Tandem Mass Spectrum Prediction with Graph Transformers

modelseeddatabase

This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno approach

ms2rescore

Modular and user-friendly platform for AI-assisted rescoring of peptide identifications

mzmine3

MZmine 3 source code repository

omixer-rpm

A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.

peakonly

picrust2

Code, unit tests, and tutorials for running PICRUSt2

polyphenols

pyopls

A Python 3 implementation of orthogonal projection to latent structures

rbiorxn

:exclamation: This is a read-only mirror of the CRAN R package repository. RbioRXN — Process Rhea, KEGG, MetaCyc, Unipathway Biochemical Reaction Data

rhermes

RHermes is a semi-targeted metabolomics package to deeply characterize biological and environmental samples.

serrfweb

sparcc

SparCC is a Python module for calculating correlations in compositional data

spectralentropy

The similarity score for spectral comparison

to-gcn

Pipeline of time-ordered gene coexpression network (TO-GCN) construction from three-dimensional (gene expression, condition, and time) data

toolbox

Toolbox - generic utilities for data processing (e.g., parsing, proximity, guild scoring, etc...)

trace-peak-picking-adjusted