Repository Index

Molecule Validation and Standardization

• rdkit
• python
• chemistry
• cheminformatics

Implementation of the paper -> https://arxiv.org/abs/1709.00155. For converting information present in the form of structured data into natural language text

AI-based pathology predicts origins for cancers of unknown primary - Nature

• histology
• pathology
• wsi-images
• histopathology

ChemML is a machine learning and informatics program suite for the chemical and materials sciences.

• quantum-mechanics
• materials-informatics
• data-science
• machine-learning

GeoMet - Pure Python conversion library for common geospatial data formats

• geojson
• wkt
• wkb
• ewkt

TransformerCPI: Improving compound–protein interaction prediction by sequence-based deep learning with self-attention mechanism and label reversal experiments(BIOINFORMATICS 2020) https://doi.org/10.1093/bioinformatics/btaa524

• self-attention
• compound-protein-interaction
• transformercpi
• structure-free-virtual-sreening

Parse NTLM challenge messages over HTTP and SMB

• reconnaissance
• information-gathering
• ntlm-authentication-protocol

Python implementation of the Packed Executable iDentifier (PEiD)

• peid
• peid-signature
• pe-file
• pe-files

A tool for cell instance aware segmentation in densely packed 3D volumetric images

• segmentation
• deep-learning
• bioinformatics
• neural-network

Auto-QChem is an automated workflow for the generation and storage of DFT calculations for organic molecules.

• cheminformatics
• dft-calculations
• automation
• feature

A simple EDI 835 file format parser.

CASSIA: A Multi-Agent LLM-Based Single-Cell Cell Type Annotation Framework

• ai4science
• llm
• multiagent-systems
• prompt-engineering

Python package implementing ML feature engineering and pre-processing for polars or pandas dataframes.

• feature-engineering
• transformers
• pre-processing
• data-science

Turn OpenStreetMap data and schedule information into GTFS

• openstreetmap
• gtfs
• schedule
• public-transportation

A CLI tool to automatically add type annotations into Python code. Must have tool for annotating existing code.

• code-formatter
• code-generation
• mypy
• pyannotate

Experimental packages for ROS access to Open Street Map information

TypeDB Bio: Biomedical Knowledge Graph

• bioinformatics
• knowledge-graph
• knowledge-base
• drug-discovery

Potiron - Normalize, Index and Visualize Network Capture

• tshark
• network-capture
• graph
• pcap

Simple Google Maps address formatter for Wagtail fields

• wagtail
• google-maps

NeoDTI: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions

• computational-biology
• bioinformatics
• graph-convolution
• deep-learning

💡✏️️ ⬇️️ JSON to Markdown converter - Generate Markdown from format independent JSON

• json
• markdown-converter
• markdown
• json-parser

Data validator agains Splunk Common Information Model (CIM)

Docker image gathering packers and tools for making datasets of packed executables and training machine learning models for packing detection

• docker-image
• executable-packing
• malware-packers
• research-platform

The Intelligent Honey Net Project attempts to create actionable information from honeypots