2495 Open source projects that are alternatives of or similar to Ugene

Data intensive science for everyone.

A collection of scripts and notes related to genomics and bioinformatics

A repository for setting up a RNAseq workflow

A package for designing compact and comprehensive capture probe sets.

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

Official code repository for GATK versions 4 and up

Analysis pipelines for sequencing data

A Java API for high-throughput sequencing data (HTS) formats.

Robust, flexible and resource-efficient pipelines using Go and the commandline

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

NGLess: NGS with less work

DEPRECIATED! Please use nf-core/tools instead

HTS-compatible wrapper for IgBlast V-(D)-J mapping tool

Generate duplex/single consensus reads to reduce sequencing noises and remove duplications

A library to build and execute typed scientific workflows

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

DNAscan is a fast and efficient bioinformatics pipeline that allows for the analysis of DNA Next Generation sequencing data, requiring very little computational effort and memory usage.

Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing

A simplified pipeline for ctDNA sequencing data analysis

Collection of scripts for bacterial genomics

Robust and efficient workflows using a simple language agnostic approach

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

Java utilities for Bioinformatics

A cross-platform command-line tool for executing jobs in parallel

Note-taking application, write down your thoughts.

In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more

Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang

A cross-platform, efficient and practical CSV/TSV toolkit in Golang

Python and C++ code for reading and writing genomics data.

The IDE for competitive programming 🎉 | Fetch, Code, Compile, Run, Check, Submit 🚀

A scalable, efficient, cross-platform (Linux/macOS) and easy-to-use workflow engine in pure Python.

Screenshot sharing application for Windows, Mac and Linux.

Qt5 image viewer with optional video support

A robust model for quantitative comparison of ChIP-Seq data sets.

Data and analysis for the Splatter paper

A python-based isomiR quantification and analysis pipeline

🍴 Web applications made easy. Since 2011.

A collection of publications on comparison of high-throughput sequencing technologies.

(No maintenance) Detect gene fusion directly from raw fastq files

Snakemake-based workflow for detecting structural variants in WGS data

NLP pipeline software using common workflow language

contains handy groovy workflow-libs scripts

C library for high-throughput sequencing data formats

highly-efficient & lightweight mutation signature matrix aggregation

A cross-platform shadowsocks GUI client

The OpenSource Disassembler

HTTP server for Qt applications

Network file transfer application for Windows, OS X, & Linux

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

🌈Scaffold genome sequence assemblies using linked read sequencing data

ABRA2

ATAC-seq peak-calling, QC and differential analysis pipeline

An interactive web tool for quality control of DNA sequencing data

Dockerised Next Generation Sequencing Pipeline (QC, Align, Calling, Annotation)

Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊

Structural variant toolkit for VCFs

Otter Browser aims to recreate the best aspects of the classic Opera (12.x) UI using Qt5

A library for generating an interactive SVG visualization of CWL workflows

Machine is a workflow/pipeline library for processing data