bioinformatics-tool

🔎 💊 Mass screening of contigs for antimicrobial and virulence genes

A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0

A modular annotation tool for genomic variants

Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm

FluentDNA allows you to browse sequence data of any size using a zooming visualization similar to Google Maps. You can use FluentDNA as a standalone program or as a python module for your own bioinformatics projects.

An implementation of MNN (Mutual Nearest Neighbors) correct in python.

Plugin for PyCharm / IntelliJ IDEA Platform IDEs which adds support for Snakemake language.

⛓ Correct misassemblies using linked AND long reads

🌺 lightweight transcriptome assembly for short reads and nanopore reads

Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data

A high throughput sequence read toolset using a streaming approach facilitated by Linux pipes

A python package for genomics data visualization by using matplotlib

A collection of Web Service Clients to consume EBI's tools via REST and SOAP APIs.

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

covtobed | Convert the coverage track from a BAM file into a BED file

an implementation of NSGA-II in java

Phigaro is a scalable command-line tool for predicting phages and prophages

iLearnPlus is the first machine-learning platform with both graphical- and web-based user interface that enables the construction of automated machine-learning pipelines for computational analysis and predictions using nucleic acid and protein sequences.

MView extracts and reformats the results of a sequence database search or multiple alignment.

🚀 seqfu - Sequece Fastx Utilities

The SpeciesPrimer pipeline is intended to help researchers finding specific primer pairs for the detection and quantification of bacterial species in complex ecosystems.

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform

Large-scale automatic feature selection for biomarker discovery in high-dimensional OMICs data

An ultra-sensitive and precise tool for characterizing T cell CDR3 sequences in TCR-seq and RNA-seq data.

Fast and accurate prediction of coiled coil domains in protein sequences. ​

⛓️ Construct a Physical Map from Linked Reads

MHC class II binding prediction

A software to detect virome-wide integrations

SOPanG, a simple tool for pattern matching over an elastic-degenerate string, a recently proposed simplified model for the pan-genome.

Bioinformatics Library for Pharo Smalltalk