273 Open source projects that are alternatives of or similar to Igv Snapshot Automator

Analysis pipelines for sequencing data

Home of the Genomic Feature and Variation Ontology (GFVO)

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

Introduction to Cloud Computing for Genomics

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

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

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

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

Official code repository for GATK versions 4 and up

Provide R access to the NCI Genomic Data Commons portal.

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

Genetic Map Comparison

A fast whole-genome aligner based on de Bruijn graphs

Bystro genetic analysis (annotation, filtering, statistics)

A fast and sensitive gapped read aligner

Version 2.1.0 released

A list of web-based interactive biological data visualizations.

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

Java utilities for Bioinformatics

(WIP) best-practices workflow for rare disease

Model and predict short DNA sequence features with neural networks

Complex structural variant detection from WGS data

A comprehensive tutorial about GWAS and PRS

Fast hash function for DNA sequences

A versatile pairwise aligner for genomic and spliced nucleotide sequences

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.

A high-performance, Pythonic language for bioinformatics

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

Pan-genome wide association studies

An interactive web portal for exploring immuno-oncology data

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

Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch

🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files

A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads

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

A simple command-line tool to download data from Joint Genome Institute databases

PHANOTATE: a tool to annotate phage genomes.

Chanjo provides a better way to analyze coverage data in clinical sequencing.

Environmental DNA metabarcoding taxonomic identification

Detection of NCLDV signatures in 'omic data

InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..

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

A proof of concept of RNAseq pipeline

De novo genome assembly and multisample variant calling

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.

Data intensive science for everyone.

Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing

De novo assembly based variant calling pipeline for Illumina short reads

mgatk: mitochondrial genome analysis toolkit

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

Earl Grey: A fully automated TE curation and annotation pipeline

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

Bayesian genotyper for structural variants

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

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

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

Predict plasmids from uncorrected long read data