4781 Open source projects that are alternatives of or similar to Sequenceserver

Official git repository for Biopython (originally converted from CVS)

Multilocus sequence typing by blast using the schemes from PubMLST

Improve the quality of a denovo assembly by scaffolding and gap filling

A faster lmm for GWAS. Supports GPU backend.

cython + htslib == fast VCF and BCF processing

Elastic, reproducible, and reusable genomic data science tools from R backed by cloud resources

dysgu-SV is a collection of tools for calling structural variants using short or long reads

Conda recipes for the bioconda channel.

Structural variant toolkit for VCFs

Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

An ultrafast memory-efficient short read aligner

Inference of ploidy and heterozygosity structure using whole genome sequencing data

Predict plasmids from uncorrected long read data

A curated list of awesome bioinformatics software.

Earl Grey: A fully automated TE curation and annotation pipeline

netSmooth: A Network smoothing based method for Single Cell RNA-seq imputation

Flexible genotype query among 30,000+ samples whole-genome

Bioinformatics library for .NET

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

UGENE is free open-source cross-platform bioinformatics software

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.

annotate a VCF with other VCFs/BEDs/tabixed files

Fast alignment and preprocessing of chromatin profiles

A comprehensive tutorial about GWAS and PRS

An open source platform for managing and analyzing biomedical big data

Ultra-fast and memory-efficient (meta-)genome assembler

A high-performance, Pythonic language for bioinformatics

A modern genome browser built with JavaScript and HTML5.

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

📖🔬☕️ BioJava is an open-source project dedicated to providing a Java library for processing biological data.

Ultrafast de novo assembly for long noisy reads (though having no consensus step)

highly-efficient & lightweight mutation signature matrix aggregation

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

Scalable genomic data analysis.

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

nim wrapper for htslib for parsing genomics data files

Bayesian genotyper for structural variants

A fast whole-genome aligner based on de Bruijn graphs

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

Bayesian haplotype-based mutation calling

A curated list of bioinformatics bench-marking papers and resources.

A repository for setting up a RNAseq workflow

GCP Essentials for Bioinformatics Researchers

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

GenomeTools genome analysis system.

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

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

goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary

Reads simulator

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

NGLess: NGS with less work

Proof-of-concept seq-to-graph mapper and graph generator

🔬 BEDOPS: high-performance genomic feature operations

Scripts to download genomes from the NCBI FTP servers

A cool place to store your Hi-C

Deep learning infrastructure for bioinformatics

Ten Quick Tips for Deep Learning in Biology

A genome browser that shows long reads and complex variants better