76 Open source projects that are alternatives of or similar to myVCF

Method to optimally select samples for validation and resequencing

A collection of Galaxy-related training material

Estimation of per-individual inbreeding coefficients under a probabilistic framework

Java utilities for Bioinformatics

ABRA2

Recentrifuge: robust comparative analysis and contamination removal for metagenomics

Estimation of pairwise distances under a probabilistic framework

RNF framework for NGS: simulation of reads, evaluation of mappers, conversion of RNF-compliant data.

R package for analyzing single-cell RNA-seq data

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

(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia

TADbit is a complete Python library to deal with all steps to analyze, model and explore 3C-based data. With TADbit the user can map FASTQ files to obtain raw interaction binned matrices (Hi-C like matrices), normalize and correct interaction matrices, identify and compare the so-called Topologically Associating Domains (TADs), build 3D models from the interaction matrices, and finally, extract structural properties from the models. TADbit is complemented by TADkit for visualizing 3D models

Rare variant test software for next generation sequencing data

HTS-compatible wrapper for IgBlast V-(D)-J mapping tool

An automated RNA-seq pipeline using Nextflow

(No maintenance) Detect gene fusion directly from raw fastq files

A Java API for high-throughput sequencing data (HTS) formats.

C library for high-throughput sequencing data formats

Ultrafast sequence typing and gene detection from NGS raw reads

A simplified pipeline for ctDNA sequencing data analysis

Tools for working with genomic and high throughput sequencing data.

Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.

Metagenomics/viromics pipeline that focuses on automation, user-friendliness and a clear audit trail. Jovian aims to empower classical biologists and wet-lab personnel to do metagenomics/viromics analyses themselves, without bioinformatics expertise.

UGENE is free open-source cross-platform bioinformatics software

is an open-source LIMS (laboratory Information Management System) for Next Generation Sequencing sample management, statistics and reports, and bioinformatics analysis service management.

An NGS read trimming tool that is specific, sensitive, and speedy. (production)

Dockerised Next Generation Sequencing Pipeline (QC, Align, Calling, Annotation)

A workflow for creating small NGS test data sets, useful for continuous integration.

A method for variant graph genotyping based on exact alignment of k-mers

A method for circular DNA detection based on probabilistic mapping of ultrashort reads

Official code repository for GATK versions 4 and up

Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies

Transposon Insertion Finder - Detection of new insertions in NGS data

Customizable workflows based on snakemake and python for the analysis of NGS data

A robust model for quantitative comparison of ChIP-Seq data sets.

Collection of scripts for bacterial genomics

Data intensive science for everyone.

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

Tools to process and analyze deep sequencing data.

Exome/Capture/RNASeq Pipeline Implementation using snakemake

Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

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

DNAscan is a fast and efficient bioinformatics pipeline that allows for the analysis of DNA Next Generation sequencing data, requiring very little computational effort and memory usage.

A course on Analysing Next Generation (/High Throughput etc..) Sequencing data using Bioconductor

Project metadata manager for PEPs in Python

RNA-seq workflow using STAR and DESeq2

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

No description or website provided.

NGLess: NGS with less work

Scalable long read self-correction and assembly polishing with multiple sequence alignment

A package for designing compact and comprehensive capture probe sets.

Fast in-silico normalization algorithm for NGS data

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

A library for manipulating bioinformatics sequencing formats in Apache Spark

Multi-sample somatic variant caller

My bioinfo toolbox

An easy-to-use way for running Galaxy workflows.

Sequana: a set of Snakemake NGS pipelines