Python Biological-data-analysis Resources

VizSeq is a Python toolkit for visual analysis on text generation tasks like machine translation, summarization, image captioning, speech translation

textpipe: clean and extract metadata from text textpipe is a Python package for converting raw text in to clean, readable text and extracting metadata

Texar is a toolkit aiming to support a broad set of machine learning, especially natural language processing and text generation tasks. Texar provides

Scattertext 0.1.0.0 A tool for finding distinguishing terms in corpora and displaying them in an interactive HTML scatter plot. Points corresponding t

Basic Utilities for PyTorch Natural Language Processing (NLP) PyTorch-NLP, or torchnlp for short, is a library of basic utilities for PyTorch NLP. tor

FlashText This module can be used to replace keywords in sentences or extract keywords from sentences. It is based on the FlashText algorithm. Install

Haystack is an end-to-end framework that enables you to build powerful and production-ready pipelines for different search use cases. Whether you want

Spark NLP: State of the Art Natural Language Processing Spark NLP is a Natural Language Processing library built on top of Apache Spark ML. It provide

VADER-Sentiment-Analysis VADER (Valence Aware Dictionary and sEntiment Reasoner) is a lexicon and rule-based sentiment analysis tool that is specifica

TextBlob: Simplified Text Processing Homepage: https://textblob.readthedocs.io/ TextBlob is a Python (2 and 3) library for processing textual data. It

An Apache 2.0 NLP research library, built on PyTorch, for developing state-of-the-art deep learning models on a wide variety of linguistic tasks. Quic

torchtext This repository consists of: torchtext.data: Generic data loaders, abstractions, and iterators for text (including vocabulary and word vecto

spaCy: Industrial-strength NLP spaCy is a library for advanced Natural Language Processing in Python and Cython. It's built on the very latest researc

ivis Implementation of the ivis algorithm as described in the paper Structure-preserving visualisation of high dimensional single-cell datasets. Ivis

pivottablejs: the Python module Drag’n’drop Pivot Tables and Charts for Jupyter/IPython Notebook, care of PivotTable.js Installation pip install pivot

plotnine Latest Release License DOI Build Status Coverage Documentation plotnine is an implementation of a grammar of graphics in Python, it is based

PyWaffle PyWaffle is an open source, MIT-licensed Python package for plotting waffle charts. It provides a Figure constructor class Waffle, which coul

animatplot A python package for making interactive as well as animated plots with matplotlib. Requires Python = 3.5 Matplotlib = 2.2 (because slider

Lets-Plot Lets-Plot is an open-source plotting library for statistical data. It is implemented using the Kotlin programming language. The design of Le

In-depth EDA (target analysis, comparison, feature analysis, correlation) in two lines of code! Sweetviz is an open-source Python library that generat

HiPlot - High dimensional Interactive Plotting HiPlot is a lightweight interactive visualization tool to help AI researchers discover correlations and

JoyPy JoyPy is a one-function Python package based on matplotlib + pandas with a single purpose: drawing joyplots (a.k.a. ridgeline plots). The code f

Introduction The facets project contains two visualizations for understanding and analyzing machine learning datasets: Facets Overview and Facets Dive

Chartify Chartify is a Python library that makes it easy for data scientists to create charts. Why use Chartify? Consistent input data format: Spend l

"To deal with hyper-planes in a 14 dimensional space, visualize a 3D space and say 'fourteen' very loudly. Everyone does it." - Geoff Hinton Overview

PyVista Deployment Build Status Metrics Citation License Community 3D plotting and mesh analysis through a streamlined interface for the Visualization

Perspective is an interactive visualization component for large, real-time datasets. Originally developed for J.P. Morgan's trading business, Perspect

TensorFlow Data Validation TensorFlow Data Validation (TFDV) is a library for exploring and validating machine learning data. It is designed to be hig

missingno Messy datasets? Missing values? missingno provides a small toolset of flexible and easy-to-use missing data visualizations and utilities tha

Turn even the largest data into images, accurately Build Status Coverage Latest dev release Latest release Docs Support What is it? Datashader is a da

HoloViews Stop plotting your data - annotate your data and let it visualize itself. HoloViews is an open-source Python library designed to make data a

PyQtGraph A pure-Python graphics library for PyQt5/PyQt6/PySide2/PySide6 Copyright 2020 Luke Campagnola, University of North Carolina at Chapel Hill h

UMAP Uniform Manifold Approximation and Projection (UMAP) is a dimension reduction technique that can be used for visualisation similarly to t-SNE, bu

Pandas Profiling Documentation | Slack | Stack Overflow Generates profile reports from a pandas DataFrame. The pandas df.describe() function is great

Bokeh is an interactive visualization library for modern web browsers. It provides elegant, concise construction of versatile graphics, and affords hi

Dash Dash is the most downloaded, trusted Python framework for building ML & data science web apps. Built on top of Plotly.js, React and Flask, Dash t

seaborn: statistical data visualization Seaborn is a Python visualization library based on matplotlib. It provides a high-level interface for drawing

CATCHY Corpus Analysis Tools for Computational Hook discovery Python tools for the corpus analysis of popular music recordings. The tools can be used

A Python library for audio feature extraction, classification, segmentation and applications This doc contains general info. Click here for the comple

Audiomentations A Python library for audio data augmentation. Inspired by albumentations. Useful for deep learning. Runs on CPU. Supports mono audio a

MDCT A fast MDCT implementation using SciPy and FFTs Installation As usual pip install mdct Dependencies NumPy SciPy STFT Usage import mdct spectrum

torchaudio: an audio library for PyTorch The aim of torchaudio is to apply PyTorch to the audio domain. By supporting PyTorch, torchaudio follows the

AUDIOMATE Audiomate is a library for easy access to audio datasets. It provides the datastructures for accessing/loading different datasets in a gener

tinytag tinytag is a library for reading music meta data of MP3, OGG, OPUS, MP4, M4A, FLAC, WMA and Wave files with python Install pip install tinytag

Jupter Notebook REST API Run your jupyter notebooks as a REST API endpoint. This isn't a jupyter server but rather just a way to run your notebooks as

starlette context Middleware for Starlette that allows you to store and access the context data of a request. Can be used with logging so logs automat

UA-GEC: Grammatical Error Correction and Fluency Corpus for the Ukrainian Language This repository contains UA-GEC data and an accompanying Python lib

A neural-based binary analysis tool Introduction This directory contains the demo of a neural-based binary analysis tool. We test the framework using

Docker Container wallstreetbets-sentiment-analysis A docker container using restful endpoints exposed on port 5000 "/analyze" to gather sentiment anal

Tab Transformer Implementation of Tab Transformer, attention network for tabular data, in Pytorch. This simple architecture came within a hair's bread

TickerRain is an open-source web app that stores and analysis Reddit posts in a transparent and semi-interactive manner

BlobHunter A tool for scanning Azure blob storage accounts for publicly opened blobs. BlobHunter is a part of "Hunting Azure Blobs Exposes Millions of

PyTorch Tabular aims to make Deep Learning with Tabular data easy and accessible to real-world cases and research alike.

COVID-19 vaccination data at subnational level. To ensure its officiality, the source data is carefully verified.

This is a Pytorch implementation of the paper: Self-Supervised Graph Transformer on Large-Scale Molecular Data.

A Theoretical Analysis of the Repetition Problem in Text Generation This repository share the code for the paper "A Theoretical Analysis of the Repeti

Summarization, translation, Q&A, text generation and more at blazing speed using a T5 version implemented in ONNX. This package is still in alpha stag

gensim – Topic Modelling in Python Gensim is a Python library for topic modelling, document indexing and similarity retrieval with large corpora. Targ

WHAT: Supervised text vectorization tool Textvec is a text vectorization tool, with the aim to implement all the "classic" text vectorization NLP meth

VizSeq is a Python toolkit for visual analysis on text generation tasks like machine translation, summarization, image captioning, speech translation

textpipe: clean and extract metadata from text textpipe is a Python package for converting raw text in to clean, readable text and extracting metadata

Texar is a toolkit aiming to support a broad set of machine learning, especially natural language processing and text generation tasks. Texar provides

Scattertext 0.1.0.0 A tool for finding distinguishing terms in corpora and displaying them in an interactive HTML scatter plot. Points corresponding t

Basic Utilities for PyTorch Natural Language Processing (NLP) PyTorch-NLP, or torchnlp for short, is a library of basic utilities for PyTorch NLP. tor

FlashText This module can be used to replace keywords in sentences or extract keywords from sentences. It is based on the FlashText algorithm. Install

Spark NLP: State of the Art Natural Language Processing Spark NLP is a Natural Language Processing library built on top of Apache Spark ML. It provide

VADER-Sentiment-Analysis VADER (Valence Aware Dictionary and sEntiment Reasoner) is a lexicon and rule-based sentiment analysis tool that is specifica

TextBlob: Simplified Text Processing Homepage: https://textblob.readthedocs.io/ TextBlob is a Python (2 and 3) library for processing textual data. It

An Apache 2.0 NLP research library, built on PyTorch, for developing state-of-the-art deep learning models on a wide variety of linguistic tasks. Quic

torchtext This repository consists of: torchtext.data: Generic data loaders, abstractions, and iterators for text (including vocabulary and word vecto

spaCy: Industrial-strength NLP spaCy is a library for advanced Natural Language Processing in Python and Cython. It's built on the very latest researc

ivis Implementation of the ivis algorithm as described in the paper Structure-preserving visualisation of high dimensional single-cell datasets. Ivis

pivottablejs: the Python module Drag’n’drop Pivot Tables and Charts for Jupyter/IPython Notebook, care of PivotTable.js Installation pip install pivot

plotnine Latest Release License DOI Build Status Coverage Documentation plotnine is an implementation of a grammar of graphics in Python, it is based

PyWaffle PyWaffle is an open source, MIT-licensed Python package for plotting waffle charts. It provides a Figure constructor class Waffle, which coul

animatplot A python package for making interactive as well as animated plots with matplotlib. Requires Python = 3.5 Matplotlib = 2.2 (because slider

Lets-Plot Lets-Plot is an open-source plotting library for statistical data. It is implemented using the Kotlin programming language. The design of Le

In-depth EDA (target analysis, comparison, feature analysis, correlation) in two lines of code! Sweetviz is an open-source Python library that generat

HiPlot - High dimensional Interactive Plotting HiPlot is a lightweight interactive visualization tool to help AI researchers discover correlations and

JoyPy JoyPy is a one-function Python package based on matplotlib + pandas with a single purpose: drawing joyplots (a.k.a. ridgeline plots). The code f

Introduction The facets project contains two visualizations for understanding and analyzing machine learning datasets: Facets Overview and Facets Dive

Chartify Chartify is a Python library that makes it easy for data scientists to create charts. Why use Chartify? Consistent input data format: Spend l

"To deal with hyper-planes in a 14 dimensional space, visualize a 3D space and say 'fourteen' very loudly. Everyone does it." - Geoff Hinton Overview

PyVista Deployment Build Status Metrics Citation License Community 3D plotting and mesh analysis through a streamlined interface for the Visualization

Perspective is an interactive visualization component for large, real-time datasets. Originally developed for J.P. Morgan's trading business, Perspect

TensorFlow Data Validation TensorFlow Data Validation (TFDV) is a library for exploring and validating machine learning data. It is designed to be hig

missingno Messy datasets? Missing values? missingno provides a small toolset of flexible and easy-to-use missing data visualizations and utilities tha

Turn even the largest data into images, accurately Build Status Coverage Latest dev release Latest release Docs Support What is it? Datashader is a da

HoloViews Stop plotting your data - annotate your data and let it visualize itself. HoloViews is an open-source Python library designed to make data a

PyQtGraph A pure-Python graphics library for PyQt5/PyQt6/PySide2/PySide6 Copyright 2020 Luke Campagnola, University of North Carolina at Chapel Hill h

UMAP Uniform Manifold Approximation and Projection (UMAP) is a dimension reduction technique that can be used for visualisation similarly to t-SNE, bu

Pandas Profiling Documentation | Slack | Stack Overflow Generates profile reports from a pandas DataFrame. The pandas df.describe() function is great

Bokeh is an interactive visualization library for modern web browsers. It provides elegant, concise construction of versatile graphics, and affords hi

Dash Dash is the most downloaded, trusted Python framework for building ML & data science web apps. Built on top of Plotly.js, React and Flask, Dash t

seaborn: statistical data visualization Seaborn is a Python visualization library based on matplotlib. It provides a high-level interface for drawing

dlib C++ library Dlib is a modern C++ toolkit containing machine learning algorithms and tools for creating complex software in C++ to solve real worl

fklearn: Functional Machine Learning fklearn uses functional programming principles to make it easier to solve real problems with Machine Learning. Th

The SHOGUN machine learning toolbox Unified and efficient Machine Learning since 1999. Latest release: Cite Shogun: Develop branch build status: Donat

What is xLearn? xLearn is a high performance, easy-to-use, and scalable machine learning package that contains linear model (LR), factorization machin

Overview | Tutorials | Examples | Installation | FAQ | How to Cite Welcome to ktrain News and Announcements 2020-11-08: ktrain v0.25.x is released and