319 Open source projects that are alternatives of or similar to OpenOmics

BACNET is a Java based platform to develop website for multi-omics analysis

The Common Core Ontology Repository holds the current released version of the Common Core Ontology suite.

This is a project based on the FIFA World Cup 2019 and Analyzes the Performance and Efficiency of Teams, Players, Countries and other related things using Data Analysis and Data Visualizations

Framework and command-line tools for integrating FollowTheMoney data streams from multiple sources

Population assignment analysis using R

COSMOS (Causal Oriented Search of Multi-Omic Space) is a method that integrates phosphoproteomics, transcriptomics, and metabolomics data sets.

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

The GenePattern Server web application

Phage-Host Interaction Search Tool

A WGS de novo assembler based on the FMD-index for large genomes

Official git repository for Biopython (originally converted from CVS)

Python package and CLI for whole-genome duplication related analyses

LRSDAY: Long-read Sequencing Data Analysis for Yeasts

Change CRC checksums of your files.

use the noise

A tool for fast and accurate summarizing of variant calling format (VCF) files

Finds SNP sites from a multi-FASTA alignment file

Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, etc.).

GA4GH Variation Representation Python Implementation

xHLA: Fast and accurate HLA typing from short read sequence data

Genome Annotation Without Nightmares

Haplotype VCF comparison tools

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

High-performance error correction for Illumina resequencing data

A toolkit to learn how to model and interpret regulatory sequence data using deep learning.

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

viGEN - A bioinformatics pipeline for the exploration of viral RNA in human NGS data

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

Extra tidyverse-like functionality

Large genome reassembly based on Hi-C data, continuation of GRAAL

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

mity: A highly sensitive mitochondrial variant analysis pipeline for whole genome sequencing data

Genomics Workflows on AWS

Template to deploy a Data Product for data stream processing into a Data Landing Zone of the Data Management & Analytics Scenario (former Enterprise-Scale Analytics). The Data Product template can be used by cross-functional teams to ingest, provide and create new data assets within the platform.

Find target sites for the miRNAs in genomic sequences

a pileup library that embraces the huge

Highly performant data storage in C++ for importing, querying and transforming variant data with C/C++/Java/Spark bindings. Used in gatk4.

No description or website provided.

🍊 💫 Trim, circularise and orient long read bacterial genome assemblies

Collection of scripts for bacterial genomics

Seven Bridges Genomics aligner/caller debugging and analysis tools

A Snakemake workflow to process single samples or cohorts of paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.

Some of the projects i made when starting to learn R for Data Science at the university

Performs memory-efficient reservoir sampling on very large input files delimited by newlines

A Software to interactively edit data in a graphical manner

DriverPower

A DNA Sequence Alignment/Map (SAM) library for Clojure

Biopython Jupyter Notebook tutorial to characterize a small genome

JavaScript VisualizationTools

A secure encryption tool for genomic data

cython + htslib == fast VCF and BCF processing

simuG: a general-purpose genome simulator

An ultrafast memory-efficient short read aligner

Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

Performant Pythonic GenomicRanges

Genome-wide imputation pipeline

A collection of scripts written to complete DQLab Data Analyst Career Track 📊

simple viewer for variant call format using htslib

Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding

WInte.r is a Java framework for end-to-end data integration. The WInte.r framework implements well-known methods for data pre-processing, schema matching, identity resolution, data fusion, and result evaluation.