88 Open source projects that are alternatives of or similar to DNA-Sequence-Machine-learning

Official code repository for GATK versions 4 and up

A fast 23andMe DNA parser and inferrer for Python

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

A package for designing compact and comprehensive capture probe sets.

🌈Scaffold genome sequence assemblies using linked read sequencing data

An efficient index for the colored, compacted, de Bruijn graph

dcHiC: Differential compartment analysis for Hi-C datasets

Nanopore sequence read simulator

karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome

memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping

De novo assembly from Oxford Nanopore reads.

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

Genome annotation with AUGUSTUS

SuperPhy for the semantic web

Download and use genomes the easy way.

Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!

Using artificial intelligence and genetic algorithms to automatically write programs. Tutorial: http://www.primaryobjects.com/cms/article149

Official git repository for Biopython (originally converted from CVS)

A Framework for Coalescent Simulation in R

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

UGENE is free open-source cross-platform bioinformatics software

ABRA2

Predicting Future Influenza Virus Sequences with Machine Learning

A genome browser that shows long reads and complex variants better

Welcome to the website and github repository for the Genome Analysis Module. This website will guide the learning experience for trainees in the UBC MSc Genetic Counselling Training Program, as they embark on a journey to learn about analyzing genomes.

Data intensive science for everyone.

MUM&Co is a simple bash script that uses Whole Genome Alignment information provided by MUMmer (only v4) to detect Structural Variation

Genomic Data Retrieval with R

Graph based multi genome aligner

🔬 Assemble large genomes using short reads

Workflow for Building Microsynteny Networks

Research on polio / protein folding.

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

Das Robert Koch-Institut stellt Systeme zur bundesweiten molekularen Surveillance des SRARS-CoV-2-Virus bereit. Jedes Labor in Deutschland, das SARS-CoV-2 sequenziert, ist laut der Verordnung zur molekulargenetischen Surveillance des Coronavirus SARS-CoV-2 verpflichtet, dem Robert Koch-Institut die Sequenz- und zugehörige Metadaten zu übermittel…

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

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

3d engine implementation in DNA code!

Genome Interval Arithmetic in R

Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model

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

CoRA Docs

Jupyter Notebooks for learning the PyRosetta platform for biomolecular structure prediction and design

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

A collection of scripts and notes related to genomics and bioinformatics

GenomeTools genome analysis system.

Analysis pipelines for sequencing data

🦄 An Artificial Inteligence to teach Google's Dinosaur to jump cactus

😴 📂 Create and Query a Local Copy of GenBank in R

Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy

tools for working with genome variation graphs

parallelized blat with multi-threads support

In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more

Viral genomics analysis pipelines

16,432 Free Yara rules created by

De novo annotation of young retrotransposons

programs and scripts, mainly python, for analyses related to nucleic or protein sequences

waka waka

Next generation sequencing reads de novo assembler.

PERF is an Exhaustive Repeat Finder