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

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

Java utilities for Bioinformatics

Official code repository for GATK versions 4 and up

Scalable genomic data analysis.

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

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

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

A high-performance, Pythonic language for bioinformatics

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Data intensive science for everyone.

Detection of NCLDV signatures in 'omic data

Compressor for genomic files (FASTQ, SAM/BAM, VCF, FASTA, GVF, 23andMe...), up to 5x better than gzip and faster too

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C++ library and cmdline tools for parsing and manipulating VCF files

Analysis pipelines for sequencing data

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Script to automatically create and run IGV snapshot batchscripts

A comprehensive tutorial about GWAS and PRS

A list of web-based interactive biological data visualizations.

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

A friendly next-generation interface for Genomic data discovery powered by InterMine

PHANOTATE: a tool to annotate phage genomes.

🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files

A Suite of Packages for Analysis of Big Genomic Data

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

Development repository for the Bioconductor package 'mixOmics '

tools for working with genome variation graphs

Bayesian genotyper for structural variants

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

Framework for building fast genomics web tools with WebAssembly and WebWorkers

Tools to process and analyze deep sequencing data.

Dynamic Kernel Matching (DKM) for Classifying Data with Non-conforming Features

Python library to handle Gene Ontology (GO) terms

Guided synteny alignment between duplicated genomes (within specified quota constraint)

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An interactive web tool for quality control of DNA sequencing data

A modern genome browser built with JavaScript and HTML5.

igv.js server and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"

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

Bioinformatics library for .NET

Efficient pythonic random access to fasta subsequences

RADseq Data Exploration, Manipulation and Visualization using R

An open source platform for managing and analyzing biomedical big data

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

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

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

annotate a VCF with other VCFs/BEDs/tabixed files

List of tools and resources related to the 10x Genomics GEMCode/Chromium system

Fast genome-wide functional annotation through orthology assignment

A collection of publications on comparison of high-throughput sequencing technologies.

Example client programs for Saphetor's VarSome annotation API

A collaboratively written review paper on deep learning, genomics, and precision medicine

Efficient variant-call data storage and retrieval library using the TileDB storage library.

GCP Essentials for Bioinformatics Researchers

Genomics Extension for SQLite

Pan-genome wide association studies

Model and predict short DNA sequence features with neural networks