423 Open source projects that are alternatives of or similar to Masurca

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

🔬 Assemble large genomes using short reads

Welcome to the website and github repository for the Genome Analysis Module. This website will guide the learning experience for trainees in the UBC MSc Genetic Counselling Training Program, as they embark on a journey to learn about analyzing genomes.

Next generation sequencing reads de novo assembler.

karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome

Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

Official code repository for GATK versions 4 and up

A package for designing compact and comprehensive capture probe sets.

A genome browser that shows long reads and complex variants better

GenomeTools genome analysis system.

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

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

Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model

🌈Scaffold genome sequence assemblies using linked read sequencing data

A DSL for data-driven computational pipelines

UGENE is free open-source cross-platform bioinformatics software

FastQC port to Qt5: A quality control tool for high throughput sequence data.

Bioinformatics library for .NET

Application for making ENCODE Blacklists

Benchmarking programming languages/implementations for common tasks in Bioinformatics

A robust and fast clustering method for amplicon-based studies

Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data

A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)

A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.

Metadata and website for the Open Bio Ontologies Foundry Ontology Registry

✏️ A versatile DNA sequence optimizer

Bio4j abstract model and general entry point to the project

GCP Essentials for Bioinformatics Researchers

A tool to circularize genome assemblies

Race and ethnicity Imputation from Disease history with Deep LEarning

Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.

Genomics Extension for SQLite

ECG classification programs based on ML/DL methods

MOLGENIS - for scientific data: management, exploration, integration and analysis.

Python module for average nucleotide identity analyses

A curated list of awesome Bioinformatics libraries and software.

HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.

Post-analysis of immune repertoire sequencing data

Pegasus Workflow Management System - Automate, recover, and debug scientific computations.

Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files according to 📝 Salentin et al. (2015), https://www.doi.org/10.1093/nar/gkv315

Bioinformatics Workbook repository

🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results

dna2vec: Consistent vector representations of variable-length k-mers

A Practical and Efficient NCBI Taxonomy Toolkit

Structural variant toolkit for VCFs

Conda recipes for the bioconda channel.

SortMeRNA: next-generation sequence filtering and alignment tool

List of tools and resources related to the 10x Genomics GEMCode/Chromium system

SquiggleKit: A toolkit for manipulating nanopore signal data

NGLess: NGS with less work

INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.

EDAM is an ontology of bioinformatics types of data including identifiers, data formats, operations and topics.

GO enrichment with python -- pandas meets networkx

A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)

Bayesian genotyper for structural variants

MyGene.info: A BioThings API for gene annotations

Code examples of fast and simple k-mer counters for tutorial purposes

APBS - software for biomolecular electrostatics and solvation

A collection of scripts and notes related to genomics and bioinformatics