795 Open source projects that are alternatives of or similar to Pyani

memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping

Collaborate & label any type of data, images, text, or documents, in an easy web interface or desktop app.

Genomics Extension for SQLite

A high-level machine learning and deep learning library for the PHP language.

Race and ethnicity Imputation from Disease history with Deep LEarning

A collection of scripts and notes related to genomics and bioinformatics

ThunderSVM: A Fast SVM Library on GPUs and CPUs

GPstuff - Gaussian process models for Bayesian analysis

A package built on top of Hugging Face's transformer library that makes it easy to utilize state-of-the-art NLP models

There are plenty of courses and tutorials that can help you learn machine learning from scratch but here in GitHub, I want to solve some Kaggle competitions as a comprehensive workflow with python packages. After reading, you can use this workflow to solve other real problems and use it as a template.

Bioinformatics Workbook repository

FastQC port to Qt5: A quality control tool for high throughput sequence data.

R wrapper for fastText

BGP Hijack Detection

A collection of all projects pertaining to different layers in the SDC software stack

LSTM and CNN sentiment analysis

pymzML - an interface between Python and mzML Mass spectrometry Files

MOLGENIS - for scientific data: management, exploration, integration and analysis.

Javascript Natural Language Classifier

Classification with PyTorch.

Inference of ploidy and heterozygosity structure using whole genome sequencing data

Post-analysis of immune repertoire sequencing data

INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.

✏️ A versatile DNA sequence optimizer

FrostNet: Towards Quantization-Aware Network Architecture Search

Caffe models (including classification, detection and segmentation) and deploy files for famouse networks

GCP Essentials for Bioinformatics Researchers

Fined grained classification On Car dataset

A curated list of almost all machine learning algorithms and deep learning algorithms grouped by category.

SortMeRNA: next-generation sequence filtering and alignment tool

Bioinformatics library for .NET

A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)

Open Source Pre-training Model Framework in PyTorch & Pre-trained Model Zoo

Pegasus Workflow Management System - Automate, recover, and debug scientific computations.

Julia package of loss functions for machine learning.

Tensorflow implementation : U-net and FCN with global convolution

Documents, papers and codes related to Natural Language Processing, including Topic Model, Word Embedding, Named Entity Recognition, Text Classificatin, Text Generation, Text Similarity, Machine Translation)，etc. All codes are implemented intensorflow 2.0.

Test Time Augmentation (TTA) wrapper for computer vision tasks: segmentation, classification, super-resolution, ... etc.

A robust and fast clustering method for amplicon-based studies

Gaussian Process package based on data augmentation, sparsity and natural gradients

Towards Building an Intelligent Anti-Malware System: A Deep Learning Approach using Support Vector Machine for Malware Classification

A sophisticated smart symptom search engine

Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data

Crop/Weed Field Image Dataset

A curated list of awesome Bioinformatics libraries and software.

OneNote (desktop) add-in to manage OneNote pages by page tags

A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.

Demonstrating best practices for bioinformatics command line tools

Metadata and website for the Open Bio Ontologies Foundry Ontology Registry

A Practical and Efficient NCBI Taxonomy Toolkit

Structural variant toolkit for VCFs

Antimicrobial Resistance Identification By Assembly

Stringlifier is on Opensource ML Library for detecting random strings in raw text. It can be used in sanitising logs, detecting accidentally exposed credentials and as a pre-processing step in unsupervised ML-based analysis of application text data.

Artificial Neural Networks for Scala

simple rules engine

A DSL for data-driven computational pipelines

Implement Decoupled Neural Interfaces using Synthetic Gradients in Pytorch

A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)

Keras implementation for Pointnet

A pytorch implementation of BERT-based relation classification