Scanpy is a Python library for the preprocessing, visualization, and analysis of large-scale single-cell gene expression datasets. It serves as a toolkit for single-cell RNA sequencing analysis, providing a framework to process and analyze genomic data from individual cells to identify biological markers and cell types. The library includes a scalable data processing pipeline for cleaning and preparing genomic data, a clustering framework for grouping cells with similar expression profiles, and a system for modeling transitions between cell states to reconstruct biological development and dif
Biopython is a bioinformatics library for Python providing tools to parse, manipulate, and analyze biological sequences, molecular structures, and phylogenetic trees. It serves as a biological sequence parser for genomic and proteomic data across multiple industry-standard file formats and acts as an interface for querying biological data and citations from NCBI Entrez repositories. The project distinguishes itself through specialized toolkits for protein structure analysis and phylogenetic tree construction. It includes a protein structure analyzer for processing PDB and mmCIF files to calcu
Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform
Interactive in-browser track viewer
The main features of hammerlab/pileup.js are: Genome Visualization.
Open-source alternatives to hammerlab/pileup.js include: scverse/scanpy — Scanpy is a Python library for the preprocessing, visualization, and analysis of large-scale single-cell gene… biopython/biopython — Biopython is a bioinformatics library for Python providing tools to parse, manipulate, and analyze biological… chgibb/phat — Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform. dasmoth/dalliance — Interactive web-based genome browser. drio/dnaism — Horizon chart js library for DNA data. chmille4/scribl — HTML5 canvas genomic graphics library.
