155 Open source projects that are alternatives of or similar to pyprophet

pDeep: Predicting MS/MS Spectra of Peptides with Deep Learning

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Using R and Bioconductor packages for the analysis and comprehension of proteomics data.

The repo for LFQ-Analyst

A complete toolkit for shotgun proteomics data analysis

pyQms, generalized, fast and accurate mass spectrometry data quantification

Quantitative features for mass spectrometry data

Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics

Keras implementation of temporal ensembling(semi-supervised learning)

The Proteomics Experimental Design file format: Standard for experimental design annotation

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

🧹 Formerly for binary classification with noisy labels. Replaced by cleanlab.

Quantum mechanic mass spectrometry calculation program

Reproduce some methods in semi-supervised papers.

Semisupervided LDA for theory-driven text analysis

A MALDI Mass Spectrometry Bioinformatics Platform

Brings Orbitrap Mass Spectrometry Data to Life; Multi-platform, Fast and Colorful R package.

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

[CVPR 2022] ST++: Make Self-training Work Better for Semi-supervised Semantic Segmentation

EC-GAN: Low-Sample Classification using Semi-Supervised Algorithms and GANs (AAAI 2021)

Reimplementation of "Realistic Evaluation of Deep Semi-Supervised Learning Algorithms"

supervised and semi-supervised image classification with self-supervision (Keras)

Quantitative Analysis of Mass Spectrometry Data

[CVPR 2021] DeFMO: Deblurring and Shape Recovery of Fast Moving Objects

Generalized Product Quantization Network For Semi-supervised Image Retrieval - CVPR 2020

I try my best to keep updated cutting-edge knowledge in Machine Learning/Deep Learning and Natural Language Processing. These are my notes on some good papers

Sinkhorn Label Allocation is a label assignment method for semi-supervised self-training algorithms. The SLA algorithm is described in full in this ICML 2021 paper: https://arxiv.org/abs/2102.08622.

PyTorch Implementation of ByteDance's Cross-speaker Emotion Transfer Based on Speaker Condition Layer Normalization and Semi-Supervised Training in Text-To-Speech

Semi-supervised GAN in "Improved Techniques for Training GANs"

📚 🔬 PIA - Protein Inference Algorithms

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

Fast and flexible semi-supervised learning for peptide detection in Python

Deep Metric Transfer for Label Propagation with Limited Annotated Data

Interpretation of proteomics identification results

Implementation of the KDD 2020 paper "Graph Structure Learning for Robust Graph Neural Networks"

Implementing Billion-scale semi-supervised learning for image classification using Pytorch

Python codes for weakly-supervised learning

Thermo MSFileReader Python bindings

This work was published on Analytical Chemistry: Full-Spectrum Prediction of Peptides Tandem Mass Spectra using Deep Neural Network

Pytorch Implementation of HybridNet: Classification and Reconstruction Cooperation for Semi-Supervised Learning (https://arxiv.org/abs/1807.11407)

Experiments on Flood Segmentation on Sentinel-1 SAR Imagery with Cyclical Pseudo Labeling and Noisy Student Training

TensorFlow implementation for "Guided Optical Flow Learning"

PyTorch implementation of EMAN for self-supervised and semi-supervised learning: https://arxiv.org/abs/2101.08482

See Triple-GAN-V2 in PyTorch: https://github.com/taufikxu/Triple-GAN

Active learning for deep object detection using YOLO

Invariant representation learning from imaging and spectral data

Reporting and exchange format for mass spectrometry quality control data

Pytorch implementations of generative models: VQVAE2, AIR, DRAW, InfoGAN, DCGAN, SSVAE

PseudoLabel 2013, VAT, PI model, Tempens, MeanTeacher, ICT, MixMatch, FixMatch

A Quality Control (QC) pipeline for Proteomics (PTX) results generated by MaxQuant

Tensorflow implementation of Adversarial Autoencoders

A library for deisotoping and charge state deconvolution of complex mass spectra

Autoencoders for Link Prediction and Semi-Supervised Node Classification (DSAA 2018)

Pytorch Implementation of "Adversarial Learning For Semi-Supervised Semantic Segmentation" for ICLR 2018 Reproducibility Challenge

A curated collection of adversarial attack and defense on graph data.

VOSK Speech Recognition Toolkit

Enhancing the BERT training with Semi-supervised Generative Adversarial Networks

Code for the paper: "SimPLE: Similar Pseudo Label Exploitation for Semi-Supervised Classification"

[CVPR 2020] Semi-Supervised Semantic Segmentation with Cross-Consistency Training.

[ICCV 2019]Aggregation via Separation: Boosting Facial Landmark Detector with Semi-Supervised Style Transition