6481 Open source projects that are alternatives of or similar to Janggu

GCP Essentials for Bioinformatics Researchers

Solutions to assignments of Coursera Specializations - Deep learning, Machine learning, Algorithms & Data Structures, Image Processing and Python For Everybody

Scalable genomic data analysis.

An interactive web tool for quality control of DNA sequencing data

A modern genome browser built with JavaScript and HTML5.

Scripts to download genomes from the NCBI FTP servers

Official code repository for GATK versions 4 and up

Analysis pipelines for sequencing data

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Tools to process and analyze deep sequencing data.

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

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Bioinformatics library for .NET

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HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.

A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation

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

Java utilities for Bioinformatics

Efficient pythonic random access to fasta subsequences

A fast and sensitive gapped read aligner

A comprehensive tutorial about GWAS and PRS

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The next version of bwa-mem

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

Therapeutics Data Commons: Machine Learning Datasets and Tasks for Therapeutics

UNCURL is a tool for single cell RNA-seq data analysis.

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

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

Model and predict short DNA sequence features with neural networks

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

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

An open source platform for managing and analyzing biomedical big data

Genomics Extension for SQLite

Reads simulator

Inference of ploidy and heterozygosity structure using whole genome sequencing data

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

NGLess: NGS with less work

A cool place to store your Hi-C

Code examples of fast and simple k-mer counters for tutorial purposes

Bayesian genotyper for structural variants

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

Bayesian haplotype-based mutation calling

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

nim wrapper for htslib for parsing genomics data files

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

A high-performance, Pythonic language for bioinformatics

A fast whole-genome aligner based on de Bruijn graphs

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

Rapid large-scale prokaryote pan genome analysis

Ten Quick Tips for Deep Learning in Biology