470 Open Source Genomics Software Projects
Free and open source genomics code projects including engines, APIs, generators, and tools.
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
FlowCraft: a component-based pipeline composer for omics analysis using Nextflow. :whale::package:
fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"
NeuSomatic: Deep convolutional neural networks for accurate somatic mutation detection
Awesome Bioinformatics Benchmarks191 ⭐
A curated list of bioinformatics bench-marking papers and resources.
HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
Sanger Pathogens Artemis160 ⭐
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
Benchmarking Tools145 ⭐
Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
A toolkit to learn how to model and interpret regulatory sequence data using deep learning.
Deep Review1187 ⭐
A collaboratively written review paper on deep learning, genomics, and precision medicine
goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary
Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`
Tidy Verbs for Dealing with Genomic Data Frames https://const-ae.github.io/tidygenomics/
:book::microscope::coffee: BioJava is an open-source project dedicated to providing a Java library for processing biological data.
Awesome 10x Genomics81 ⭐
List of tools and resources related to the 10x Genomics GEMCode/Chromium system