398 Open source projects that are alternatives of or similar to Sniffles

Genome assembly evaluation tool

Tools for working with genomic and high throughput sequencing data.

code for reading and processing Allen Institute for Brain Science data

Python for Bioinformatics

MiXCR is a universal software for fast and accurate extraction of T- and B- cell receptor repertoires from any type of sequencing data. Free for academic use only.

🔬 BEDOPS: high-performance genomic feature operations

Curated (meta)list of resources for Biology.

🍺🔬 Bioinformatics formulae for the Homebrew package manager (macOS and Linux)

Bioconductor cheat sheet

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

Protein Graph Library

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

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

Ten Quick Tips for Deep Learning in Biology

An overview of algorithms for estimating pseudotime in single-cell RNA-seq data

Cuneiform distributed programming language

A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.

A repository for setting up a RNAseq workflow

Official git repository for Biopython (originally converted from CVS)

Fast Reference-Guided Scaffolding of Genome Assembly Contigs. RagTag, the successor to RaGOO, is now available here: https://github.com/malonge/RagTag

A powerful open source data warehouse system

BioGrakn Knowledge Graph

Remote protein homology detection suite.

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database

The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

A genome browser that shows long reads and complex variants better

parallel fastq-dump wrapper

🔬 Assemble large genomes using short reads

Deep learning infrastructure for bioinformatics

Strelka2 germline and somatic small variant caller

Toolset for SV simulation, comparison and filtering

React component for Cytoscape.js network visualisations

Reads simulator

JavaScript VisualizationTools

Rapid large-scale prokaryote pan genome analysis

A curated list of resources for learning bioinformatics.

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

Quickly search, compare, and analyze genomic and metagenomic data sets.

Annotated data.

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

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

Dash for Julia - A Julia interface to the Dash ecosystem for creating analytic web applications in Julia. No JavaScript required.

Syntax highlighting for computational biology

Intuitive local web frontend for the BLAST bioinformatics tool

The sources of the openSNP website

Examples of using deep learning in Bioinformatics

Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing

Python package for graph neural networks in chemistry and biology

Next generation sequencing reads de novo assembler.

Core BioPerl 1.x code

R package for analyzing single-cell RNA-seq data

RAxML Next Generation: faster, easier-to-use and more flexible

Package for fetching metadata and downloading data from SRA/ENA/GEO

Analytical Web Apps for Python, R, Julia, and Jupyter. No JavaScript Required.

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

Haplotype VCF comparison tools

A curated list of Cheminformatics libraries and software.

cython + htslib == fast VCF and BCF processing

An ultrafast memory-efficient short read aligner

GenomeTools genome analysis system.