753 Open source projects that are alternatives of or similar to Vcfanno

A standalone and free application to explore genetics variations from VCF file

A better annotation generator. Supports multiple languages and annotation conventions.

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

Useful bioinformatic scripts

Genomic VCF to tab-separated values

GA4GH Variation Representation Python Implementation

Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.

Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding

use the noise

Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.

easy storage Object on SharedPreferences

Tools, documentation and resources for creating front-end pages and apps in Hypothesis

Command line tool to run batch jobs concurrently with ETL framework on AWS or other cloud computing resources

An ontology of cell types

Clustering scRNAseq by genotypes

LRSDAY: Long-read Sequencing Data Analysis for Yeasts

Improving genome bins through the combination of different binning programs

mity: A highly sensitive mitochondrial variant analysis pipeline for whole genome sequencing data

Software for comparing contact maps from HiC, CaptureC and other 3D genome data.

a neovim comment and annotation plugin using coroutine

📊 Codon usage tables in code-friendly format + Python bindings

Python modules and scripts for working with Concrete, a data serialization format for NLP

React rerelease of MSAViewer

pytoda - PaccMann PyTorch Dataset Classes. Read the docs: https://paccmann.github.io/paccmann_datasets/

📈 Summarise your test failures as a build annotation

Frequently used commands in bioinformatics

Performs memory-efficient reservoir sampling on very large input files delimited by newlines

ImmuneDB - A system for the analysis and exploration of high-throughput adaptive immune receptor sequencing data

Genome Annotation Without Nightmares

Classify sequencing reads using MinHash.

Question Answering annotation platform - Plateforme d'annotation

Simple annotation processor example. Inspired by the idea of "How ButterKnife works?"

No description or website provided.

SIRIUS is a software for discovering a landscape of de-novo identification of metabolites using tandem mass spectrometry. This repository contains the code of the SIRIUS Software (GUI and CLI)

Build and maintain multiple custom conda environments all in once place.

Genome-wide imputation pipeline

a web page highlighter - Please star if you like this project

viGEN - A bioinformatics pipeline for the exploration of viral RNA in human NGS data

A proof of concept of RNAseq pipeline

Population assignment analysis using R

A curated list of phage related software and computational resources for phage scientists, bioinformaticians and enthusiasts.

Aim to be the bioinformatics repository with more and newer packages

Detection of NCLDV signatures in 'omic data

An annotation processor which implements "Builder pattern" for your java classes.

A versatile tool to perform pile-up analysis on Hi-C data in .cool format.

GWAS summary statistics files QC tool

API spec validator and OpenAPI document generator for Python web frameworks.

An OpenSeadragon plugin for annotating high-res zoomable images

Protwis is the backbone of the GPCRdb. The GPCRdb contains reference data, interactive visualisation and experiment design tools for G protein-coupled receptors (GPCRs).

A tool for fast and accurate summarizing of variant calling format (VCF) files

Highly performant data storage in C++ for importing, querying and transforming variant data with C/C++/Java/Spark bindings. Used in gatk4.

A permissively licensed library designed to replace Illumina's Experiment Manager

🍊 💫 Trim, circularise and orient long read bacterial genome assemblies

(已废弃) 项目内容已迁移到:

🔥 One of the most comprehensive open-source data annotation platform.

My own tools code for NGS data analysis (Next Generation Sequencing)

Monorepo with JBrowse 2 web, JBrowse 2 desktop, the JB core package, and core plugins. To customize behaviors, write an in-house plugin.

TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annotation, inferring orthologs and classifying genes as intact or lost.

Project metadata manager for PEPs in Python

Rapid determination of appropriate reference genomes.