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nlp_data-collection

noodles

Bioinformatics I/O libraries in Rust

nre

Neural Relation Extraction, including CNN, PCNN, CNN+ATT, PCNN+ATT

nrlpapers

Must-read papers on network representation learning (NRL)/network embedding (NE)

nthash

Fast hash function for DNA sequences

octopus

Bayesian haplotype-based mutation calling

odgi

Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs (https://doi.org/10.1093/bioinformatics/btac308)

openpbs

An HPC workload manager and job scheduler for desktops, clusters, and clouds.

orbit

C/C++ Performance Profiler

paddle

PArallel Distributed Deep LEarning: Machine Learning Framework from Industrial Practice （『飞桨』核心框架，深度学习&机器学习高性能单机、分布式训练和跨平台部署）

pathnre

Source code and dataset of EMNLP2017 paper "Incorporating Relation Paths in Neural Relation Extraction".

pbamutils

parallel bam statistics utilities for NGS analysis

perbase

base variation analysis straight for per genome position

phenotips

The open-source version of PhenoTips is no longer maintained. PhenoTips makes it simple to record clinical findings observed in patients with possible genetic disorders through an easy-to-use Web interface

pisa

A collection of tools to process single-cell omics datasets.

poco

The POCO C++ Libraries are powerful cross-platform C++ libraries for building network- and internet-based applications that run on desktop, server, mobile, IoT, and embedded systems.

proppr

Graph-algorithm inferences over local groundings of first-order logic programs

pthash

Fast and compact minimal perfect hash functions in C++.

pufferfish

An efficient index for the colored, compacted, de Bruijn graph

pyro

Deep universal probabilistic programming with Python and PyTorch

python

All Algorithms implemented in Python

pytorch

Tensors and Dynamic neural networks in Python with strong GPU acceleration

pytorch-nlp

Supporting Rapid Prototyping with a Toolkit (incl. Datasets and Neural Network Layers)

pytorch-tutorial

PyTorch Tutorial for Deep Learning Researchers

raptor

A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.

rare-disease-wf

(WIP) best-practices workflow for rare disease

ray

An open source framework that provides a simple, universal API for building distributed applications. Ray is packaged with RLlib, a scalable reinforcement learning library, and Tune, a scalable hyperparameter tuning library.

rchts

Rust Collections for High Thought Sequencing datasets

refinereads

Generate duplex/single consensus reads to reduce sequencing noises and remove duplications

reinforcement-learning

Implementation of Reinforcement Learning Algorithms. Python, OpenAI Gym, Tensorflow. Exercises and Solutions to accompany Sutton's Book and David Silver's course.