273 Open source projects that are alternatives of or similar to Vcflib

Assembling the cause of phenotypes and genotypes from NGS data

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

BACNET is a Java based platform to develop website for multi-omics analysis

A curated list of awesome bioinformatics software.

echt rapid variant annotation and filtering

Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI

Feature Annotation Location Description Ontology

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

A package for designing compact and comprehensive capture probe sets.

Predict plasmids from uncorrected long read data

An ontology of cell types

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

Example client programs for Saphetor's VarSome annotation API

Fast alignment and preprocessing of chromatin profiles

An open source platform for managing and analyzing biomedical big data

An open-access bioinformatics text

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.

📓Notebook of Climente-González et al. (2017), The Functional Impact of Alternative Splicing in Cancer.

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

Compute N50/NG50 and auN/auNG

A fast 23andMe genome text file parser, now superseded by arv

SaffronTree: Reference free rapid phylogenetic tree construction from raw read data

annotate a VCF with other VCFs/BEDs/tabixed files

Data Wrangling and Processing for Genomics

Command-line program to wrap dagchainer and combine pairwise results into multi-alignments in column format

Home of the Genomic Feature and Variation Ontology (GFVO)

An interactive web portal for exploring immuno-oncology data

PHANOTATE: a tool to annotate phage genomes.

Introduction to Cloud Computing for Genomics

A comprehensive tutorial about GWAS and PRS

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

Detection of NCLDV signatures in 'omic data

Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.

A fast and sensitive gapped read aligner

Provide R access to the NCI Genomic Data Commons portal.

De novo genome assembly and multisample variant calling

Genetic Map Comparison

A high-performance, Pythonic language for bioinformatics

Bystro genetic analysis (annotation, filtering, statistics)

De novo assembly based variant calling pipeline for Illumina short reads

Version 2.1.0 released

Python library to facilitate genome assembly, annotation, and comparative genomics

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

Earl Grey: A fully automated TE curation and annotation pipeline

(WIP) best-practices workflow for rare disease

A React web application to query and share any PostgreSQL database.

Complex structural variant detection from WGS data

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

Fast hash function for DNA sequences

Java utilities for Bioinformatics

MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.

CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies

Simple pure Python SAM parser and objects for working with SAM records

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

Inference of switch-like differential expression along single-cell trajectories

The next version of bwa-mem

A modern genome browser built with JavaScript and HTML5.

Efficient pythonic random access to fasta subsequences

Fast genome-wide functional annotation through orthology assignment

Find causal cell-types underlying complex trait genetics