Python Sequence-alignment Resources

BasicVSR_PlusPlus (CVPR 2022) [Paper] [Project Page] [Code] This is the official repository for BasicVSR++. Please feel free to raise issue related to

EMOCA: Emotion Driven Monocular Face Capture and Animation Radek Daněček · Michael J. Black · Timo Bolkart CVPR 2022 This repository is the official i

ROCA: Robust CAD Model Alignment and Retrieval from a Single Image (CVPR 2022) Code release of our paper ROCA. Check out our video, paper, and website

SOFIMA SOFIMA (Scalable Optical Flow-based Image Montaging and Alignment) is a tool for stitching, aligning and warping large 2d, 3d and 4d microscopy

LG-AI-Challenge-for-Plant-Classification Dacon에서 진행된 농업 환경 변화에 따른 작물 병해 진단 AI 경진대회 에 대한 코드입니다. (colab directory에 코드가 잘 정리 되어있습니다.) Requirements python

rich-msa A simple module to render colorful Multiple Sequence Alignment with rich in the terminal. 🔧 Installing Install the rich-msa package directly

Paper | Blog OFA is a unified multimodal pretrained model that unifies modalities (i.e., cross-modality, vision, language) and tasks (e.g., image gene

Behavior-Sequence-Transformer-Pytorch This is a pytorch implementation for the BST model from Alibaba https://arxiv.org/pdf/1905.06874.pdf This model

TwoStageAlign The official codes of our CVPR2022 paper: A Differentiable Two-stage Alignment Scheme for Burst Image Reconstruction with Large Shift Pa

Description: ProtFeat is designed to extract the protein features by employing POSSUM and iFeature python-based tools. ProtFeat includes a total of 39

Fibonaaci Series Generating the Fibonacci sequence is a classic recursive proble

Official repository of OFA. Paper: Unifying Architectures, Tasks, and Modalities Through a Simple Sequence-to-Sequence Learning Framework

Minimal implementation of Decision Transformer: Reinforcement Learning via Sequence Modeling in PyTorch for mujoco control tasks in OpenAI gym

DNA sequence classification by Deep Neural Network: Project Overview worked on the DNA sequence classification problem where the input is the DNA sequ

find_te_ins find_te_ins is designed to find Transposon Element (TE) insertions using long reads (nanopore), by alignment directly. (minimap2) Install

Regression Transformer Codebase to experiment with a hybrid Transformer that combines conditional sequence generation with regression . Development se

Classification using Deep Learning Requirements PyTorch version = 1.9.1+cu111 Python version = 3.8.10 PyTorch-Lightning version = 1.4.9 Huggingface

En- and decrypting text-messages by creating a key with of the fibonacci-sequence. This key helps to create mathematical functions, whose zeros should generates the encrypted message.

Temporal Alignment Prediction for Supervised Representation Learning and Few-Shot Sequence Classification Introduction. This package includes the pyth

Iterative refinement graph neural network for antibody sequence-structure co-des

Diaformer Diaformer: Automatic Diagnosis via Symptoms Sequence Generation (AAAI 2022) Diaformer is an efficient model for automatic diagnosis via symp

Tensorflow Implementation of A Generative Flow for Text-to-Speech via Monotonic Alignment Search

NaturalCC NaturalCC is a sequence modeling toolkit that allows researchers and developers to train custom models for many software engineering tasks,

JASS: Japanese-specific Sequence to Sequence Pre-training for Neural Machine Translation This the repository for this paper. Find extensions of this w

ReLSO Improved Fitness Optimization Landscapes for Sequence Design Description Citation How to run Training models Original data source Description In

Tablicate Tablicate - Python library for easy table creation and output to terminal Features Column-wise justification alignment (left, right, center)

gapmm2: gapped alignment using minimap2 This tool is a wrapper for minimap2 to r

FSRA This repository contains the dataset link and the code for our paper A Transformer-Based Feature Segmentation and Region Alignment Method For UAV

Sequence-Labeling-Early-Exit Code for ACL 2021 paper: Accelerating BERT Inference for Sequence Labeling via Early-Exit Requirement: Please refer to re

pyspark_sam This repo hosts my code for the article "Analyze Big Sequence Alignm

sequitur sequitur is a library that lets you create and train an autoencoder for sequential data in just two lines of code. It implements three differ

CAMoE + Dual SoftMax Loss (DSL): Improving Video-Text Retrieval by Multi-Stream Corpus Alignment and Dual Softmax Loss This is official implement of "

ParaGen is a PyTorch deep learning framework for parallel sequence generation. Apart from sequence generation, ParaGen also enhances various NLP tasks, including sequence-level classification, extraction and generation.

Algorithms Classic algorithms including Fizz Buzz, Bubble Sort, the Fibonacci Sequence, a Sudoku solver, and more. Algorithm Complexity Time and Space

CFD Python Please cite as: Barba, Lorena A., and Forsyth, Gilbert F. (2018). CFD Python: the 12 steps to Navier-Stokes equations. Journal of Open Sour

Python implementation of MULTIseq barcode alignment using fuzzy string matching and GMM barcode assignment.

AAF framework Framework generalities This repository contains the code of the AAF framework proposed in this paper. The main idea behind this work is

PAMA This is the Pytorch implementation of Progressive Attentional Manifold Alignment. Requirements python 3.6 pytorch 1.2.0+ PIL, numpy, matplotlib C

Ejemplo Algoritmo Viterbi Ejemplo de un algoritmo Viterbi aplicado a modelo ocul

Forex Data Prediction via Recurrent Neural Network Deep Sequence Modeling Research Paper Our research paper can be viewed here Installation Clone the

msprime msprime is a population genetics simulator based on tskit. Msprime can simulate random ancestral histories for a sample of individuals (consis

FFsubsync Language-agnostic automatic synchronization of subtitles with video, so that subtitles are aligned to the correct starting point within the

Bi-level feature alignment for versatile image translation and manipulation (Under submission of TPAMI) Preparation Clone the Synchronized-BatchNorm-P

Seq2seq Sequence to Sequence Learning with Keras Hi! You have just found Seq2Seq. Seq2Seq is a sequence to sequence learning add-on for the python dee

(简体中文|English) Quick Start | Documents | Models List PaddleSpeech is an open-source toolkit on PaddlePaddle platform for a variety of critical tasks i

Self-Training for Neural Sequence Generation This repo includes instructions for running noisy self-training algorithms from the following paper: Revi

Sequence labeler This is a neural network sequence labeling system. Given a sequence of tokens, it will learn to assign labels to each token. Can be u

bistring The bistring library provides non-destructive versions of common string processing operations like normalization, case folding, and find/repl

This program analyzes a DNA sequence and outputs snippets of DNA that are likely to be protein-coding genes.

(intron I nterrogator and C lassifier) intronIC is a program that can be used to classify intron sequences as minor (U12-type) or major (U2-type), usi

Vdo & Img Conversion Tools This is a quick conversion tool made with python that can save you a lot of time. With this tool you can extract image sequ

Pango lineage information for German SARS-CoV-2 sequences This repository contains a join of the metadata and pango lineage tables of all German SARS-

mrsd: a toolkit to generate MR sequence diagrams mrsd is a Python toolkit to generate MR sequence diagrams, as shown below for the basic FLASH sequenc

script-SV-genotyping These are the scripts used for the project of ‘Assembly of a pan-genome for global cattle reveals missing sequence and novel stru

Nagisa is a python module for Japanese word segmentation/POS-tagging. It is designed to be a simple and easy-to-use tool. This tool has the following

Face Alignment Face Alignment using python Input Image Aligned Face Aligned Face Aligned Face Input Image Aligned Face Input Image Aligned Face Instal

Table of contents Introduction Using BARTpho with fairseq Using BARTpho with transformers Notes BARTpho: Pre-trained Sequence-to-Sequence Models for V

MT-VAE for Multimodal Human Motion Synthesis This is the code for ECCV 2018 paper MT-VAE: Learning Motion Transformations to Generate Multimodal Human

undirected-generation-dev This repo contains the source code of the models described in the following paper "Learning and Analyzing Generation Order f

DECA: Detailed Expression Capture and Animation (SIGGRAPH2021) input image, aligned reconstruction, animation with various poses & expressions This is

SeqLike - flexible biological sequence objects in Python Introduction A single object API that makes working with biological sequences in Python more

University1652-Baseline [Paper] [Slide] [Explore Drone-view Data] [Explore Satellite-view Data] [Explore Street-view Data] [Video Sample] [中文介绍] This

PEGASUS library Pre-training with Extracted Gap-sentences for Abstractive SUmmarization Sequence-to-sequence models, or PEGASUS, uses self-supervised

ProphetNet-X This repo provides the code for reproducing the experiments in ProphetNet. In the paper, we propose a new pre-trained language model call

How to apply? Create your config.ini file following the example provided in config.ini Choose one of the options below to run: Run with Python3 pip in

pandas is a Python package that provides fast, flexible, and expressive data structures designed to make working with "relational" or "labeled" data both easy and intuitive.

ObjSequenceViewer V0.5 A minimal, standalone viewer for 3D animations stored as stop-motion sequences of individual .obj mesh files. Installation: pip

GAN-Supervised Dense Visual Alignment — Official PyTorch Implementation Paper | Project Page | Video This repo contains training, evaluation and visua

CCasGNN A new framework, collaborative cascade prediction based on graph neural networks (CCasGNN) to jointly utilize the structural characteristics,

rapidnlp-datasets Data pipelines for both TensorFlow and PyTorch ! If you want to load public datasets, try: tensorflow/datasets huggingface/datasets

MDM A Tensorflow implementation of the Mnemonic Descent Method. Mnemonic Descent Method: A recurrent process applied for end-to-end face alignment G.

BERTMap: A BERT-based Ontology Alignment System Important Notices The relevant paper was accepted in AAAI-2022. Arxiv version is available at: https:/

Simple, high-school-leveled sequence library written in Python

Transfer Learning for Text Classification with Tensorflow Tensorflow implementation of Semi-supervised Sequence Learning(https://arxiv.org/abs/1511.01

PyTorch-trainer-and-model-for-Sequence-Classification After cloning the repository, modify your training data so that the training data is a .csv file

BERTGEN This repository is the implementation of the paper "BERTGEN: Multi-task Generation through BERT" (https://arxiv.org/abs/2106.03484). The codeb

pytm: A Pythonic framework for threat modeling Introduction Traditional threat modeling too often comes late to the party, or sometimes not at all. In

Revisiting Temporal Alignment for Video Restoration [arXiv] Kun Zhou, Wenbo Li, Liying Lu, Xiaoguang Han, Jiangbo Lu We provide our results at Google

Implicit-Semantic-Response-Alignment Pytorch implementation for "Implicit Semantic Response Alignment for Partial Domain Adaptation" Prerequisites pyt

Across-animal odor decoding by probabilistic manifold alignment (NeurIPS 2021) This repository is the official implementation of aligned mixture of la

Equi-RC Equivariant layers for RC-complement symmetry in DNA sequence data This is a repository that implements the layers as described in "Reverse-Co

FastTrees This repository contains the experimental code supporting the FastTrees paper by Bill Pung. Software Requirements Python 3.6, NLTK and PyTor

nnedi3_resample A VapourSynth script for easy resizing using nnedi3/znedi3/nnedi3cl with center alignment and correct chroma placement. Requirements n

Sequence clustering and database creation using mmseqs, from local fasta files

Deep Video Matting via Spatio-Temporal Alignment and Aggregation [CVPR2021] Paper: https://arxiv.org/abs/2104.11208 Introduction Despite the significa

Automatic Face Alignment (AFA) Carl M. Gaspar & Oliver G.B. Garrod You have lots of photos of faces like this: But you want to line up all of the face

CenterFace Introduce CenterFace(size of 7.3MB) is a practical anchor-free face detection and alignment method for edge devices. Recent Update 2019.09.

PSML paper: Towards Improving Embedding Based Models of Social Network Alignment via Pseudo Anchors PSML_IONE,PSML_ABNE,PSML_DEEPLINK,PSML_SNNA: numpy

trRosetta This package is a part of trRosetta protein structure prediction protocol developed in: Improved protein structure prediction using predicte

GLANet The code for Global and Local Alignment Networks for Unpaired Image-to-Image Translation arxiv Framework: visualization results: Getting Starte

TransMorph: Transformer for Medical Image Registration keywords: Vision Transformer, Swin Transformer, convolutional neural networks, image registrati

Trajectory Transformer Code release for Offline Reinforcement Learning as One Big Sequence Modeling Problem. Installation All python dependencies are

Lingtrain Alignment Studio Intro Lingtrain Alignment Studio is the ML based app for accurate texts alignment on different languages. Extracts parallel

SeqGAN Requirements: Tensorflow r1.0.1 Python 2.7 CUDA 7.5+ (For GPU) Introduction Apply Generative Adversarial Nets to generating sequences of discre

Sequence Generation with GANs trained by Gradient Estimation Requirements: PyTorch v0.3 Python 3.6 CUDA 9.1 (For GPU) Origin The idea is from paper Se

Sequence to Sequence (seq2seq) Recurrent Neural Network (RNN) for Time Series Forecasting Note: You can find here the accompanying seq2seq RNN forecas

Keras implementation of a sequence to sequence model for time series prediction using an encoder-decoder architecture. I created this post to share a

Foreign Pronunciation Generator (English-Chinese) We provide a simple socket script for acquiring Chinese pronunciation of English words (phones in ai

GOAT A paper using optimal transport to solve the graph matching problem. https://arxiv.org/abs/2111.05366 Repo structure .github: Files specifying ho

hierarchical-transformer-1d Implementation of H-Transformer-1D, Hierarchical Attention for Sequence Learning using 🤗 transformers In Progress!! 2021.