treitpeter

treitpeter's Stars

• openai/whisper

  Robust Speech Recognition via Large-Scale Weak Supervision

  Language:Python66.7k55907.9k

• meta-llama/llama3

  The official Meta Llama 3 GitHub site

  Language:Python25.8k2122292.9k

• fastai/fastbook

  The fastai book, published as Jupyter Notebooks

  Language:Jupyter Notebook21.4k5072358.3k

• plotly/plotly.py

  The interactive graphing library for Python :sparkles: This project now includes Plotly Express!

  Language:Python15.9k2742.9k2.5k

• Sinaptik-AI/pandas-ai

  Chat with your database (SQL, CSV, pandas, polars, mongodb, noSQL, etc). PandasAI makes data analysis conversational using LLMs (GPT 3.5 / 4, Anthropic, VertexAI) and RAG.

  Language:Python12.4k1036671.2k

• mwaskom/seaborn

  Statistical data visualization in Python

  Language:Python12.4k2612.5k1.9k

• facebookresearch/esm

  Evolutionary Scale Modeling (esm): Pretrained language models for proteins

  Language:Python3.1k65320612

• soedinglab/MMseqs2

  MMseqs2: ultra fast and sensitive search and clustering suite

  Language:C1.3k32814190

• eggnogdb/eggnog-mapper

  Fast genome-wide functional annotation through orthology assignment

  Language:Python55618498106

• hyattpd/Prodigal

  Prodigal Gene Prediction Software

  Language:C432269785

• vdemichev/DiaNN

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

  Language:C++2562265553

• lazear/sage

  Proteomics search & quantification so fast that it feels like magic

  Language:Rust209129638

• Nesvilab/FragPipe

  A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics data

  Language:Java182211.6k37

• MannLabs/alphapeptdeep

  Deep learning framework for proteomics

  Language:Jupyter Notebook10497620

• Noble-Lab/casanovo

  De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

  Language:Python98720736

• unode/polypomo

  Pomodoro widget for use with polybar (or standalone if you are so inclined)

  Language:Python986610

• MannLabs/ProteomicsVisualization

  This is a collection of minimal code to visualize various aspects of proteomics data.

  Language:Jupyter Notebook66458

• MannLabs/alphapeptstats

  Python Package for the downstream analysis of mass-spectrometry-based proteomics data

  Language:Jupyter Notebook5562912

• instadeepai/InstaNovo

  De novo peptide sequencing with InstaNovo: Accurate, database-free peptide identification for large scale proteomics experiments

  Language:Python418157

• MannLabs/directlfq

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

  Language:Jupyter Notebook374234

• Liang-yc/ECUSTFD-resized-

  ECUSTFD is a food image dataset for evaluating computer vision-based methods. ECUSTFD includes 2978 images.

  322017

• MannLabs/alphaviz

  AlphaViz is a cutting-edge browser-based interactive visualization tool allowing to visualize the processed mass spectrometry data acquired with Bruker instrument.

  Language:Python305132

• MannLabs/OmicLearn

  🧪 🖥 Transparent exploration of machine learning for biomarker discovery from proteomics and omics data

  Language:Python29148

• bhattlab/SmORFinder

  A command line tool to identify and annotate small proteins in microbial sequencing datasets.

  Language:Python13653

• theGreatHerrLebert/sagepy

  A python interface to the SAGE search engine for mass spectrometry proteomics

  Language:Rust6311

• unode/fna2faa

  Translate nucleotides (DNA & RNA) to aminoacid using IUPAC ambiguity codes

  Language:C++4302

• karlactm/Proteogenomics

  Language:Perl3

• elolab/glaDIAtor

  Tool for processing metaproteomics DDA and DIA data.

  Language:Python20

• MannLabs/slurm_scripts

  Language:Shell1101

• terrematte/dbPepVar

  Language:JavaScript1301