VueGen automates the creation of reports from bioinformatics outputs, supporting formats like PDF, HTML, DOCX, ODT, PPTX, Reveal.js, Jupyter notebooks, and Streamlit web applications. Users simply provide a directory with output files and VueGen compiles them into a structured report.
Network Regression Embeddings reveal cell-type Transcription Factor coordination for target gene (TG) regulation
High-performance Julia tool for sequence demultiplexing
Python package for creating interactive and static visualizations of multi-omics data
Batch Effect Correction framework for metagenomic data
Easy Way to Generate PSSM from the FASTA Sequences
DNA mutation clustering tool for fast detection of likely false-negative DNA variants and likely related mutants in a sequenced population of independently mutagenized individuals. Other uses include analysis of segregating mutants and the detection of problematic samples in a sequenced population.
BioGenie is a complete bioinformatics command line tool, written in C++.
EDAMannot is a command-line toolbox which applies to annotations related to the EDAM ontology.
EpiRNA-Scanner, a publicly deployed web framework that processes sequences from 41 bases to over 100,000 bases without manual preprocessing. The system introduces Epitranscriptomic Boundary Contrast Scoring (EBCS), producing single-nucleotide resolution predictions anchored to degenerate DRACH motifs.
State-of-the-art biology program translation pipeline and scheduler
Bioinformatics Dependencies Platform - A better way to manage your bioinformatics data sources, search and query across multiple bioinformatics databases, tooling. Properly version and reproduce your research, generate citation and data acessibility statement.
MethScope: Cloud-Native Interactive Genome Browser for Nanopore DNA Methylation
A modular molecular dynamics engine with the aim of being part of a user-friendly project to turn MD simulation into agentic-based workflows.
Official code repository for GATK versions 4 and up
Web tool for identifying and generating pathogenic protein variant sequences from canonical FASTA files, utilizing the UniProt API.
Bioconda is a distribution of bioinformatics software realized as a channel for the versatile package manager Conda.
Assessing bioinformatics software annotations: bio.tools case-study
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