A Variant Caller, Distributed. Apache 2 licensed.
☆72Mar 11, 2019Updated 7 years ago
Alternatives and similar repositories for avocado
Users that are interested in avocado are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- An RNA pipeline built on top of ADAM. Apache 2 licensed.☆19Jan 19, 2018Updated 8 years ago
- Open source formats for scalable genomic processing systems using Avro. Apache 2 licensed.☆43Feb 13, 2026Updated 8 months ago
- Spark-based variant calling, with experimental support for multi-sample somatic calling (including RNA) and local assembly☆85Mar 22, 2026Updated 7 months ago
- ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 li…☆1,060Mar 17, 2026Updated 7 months ago
- Compare assembly graph file formats☆16Jul 23, 2015Updated 11 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Hadoop-BAM is a Java library for the manipulation of files in common bioinformatics formats using the Hadoop MapReduce framework☆74Dec 2, 2022Updated 3 years ago
- Ready-to-go Parquet-formatted public 'omics datasets☆30Nov 2, 2015Updated 11 years ago
- Distributed execution of bioinformatics tools on Apache Spark. Apache 2 licensed.☆41Mar 17, 2026Updated 7 months ago
- Cloud-scale differential expression for RNA-seq☆15May 23, 2023Updated 3 years ago
- Benchmarking toolkit for variant calling☆48Oct 13, 2020Updated 6 years ago
- A genotype query interface.☆136Mar 29, 2021Updated 5 years ago
- Integrate the GA4GH schemas and probably a scala impl of the service.☆14May 20, 2016Updated 10 years ago
- Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data☆297Oct 12, 2026Updated 3 weeks ago
- Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities☆25Oct 31, 2019Updated 7 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Collections of transcription factor binding motifs for the software suite Regulatory Sequence Analysis Tools (RSAT)☆11May 16, 2026Updated 5 months ago
- SparkBWA is a new tool that exploits the capabilities of a Big Data technology as Apache Spark to boost the performance of one of the mos…☆70Sep 5, 2019Updated 7 years ago
- Models and APIs for Genomic data. RETIRED 2018-01-24☆220Oct 28, 2022Updated 4 years ago
- Bioinformatics for the Scala programming language☆115Aug 24, 2025Updated last year
- [Historical] Reproducible Analyses for Bioinformatics☆107Mar 11, 2019Updated 7 years ago
- This repository implements converters and tools for working with NGS data in HPC or Hadoop cluster☆17Apr 13, 2018Updated 8 years ago
- Subset of the kent source libraries (perhaps out of date) that are easily built and installed on OSX and Linux. These libraries provide u…☆13Oct 30, 2012Updated 14 years ago
- Compressive Read-mapping Accelerator☆14Sep 7, 2016Updated 10 years ago
- DCP Expression Matrix Service☆12Feb 15, 2026Updated 8 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Isaac Genome Alignment Software☆36Apr 7, 2015Updated 11 years ago
- Novel Adjacency Identification with Barcoded Reads☆13Apr 19, 2022Updated 4 years ago
- EXPERIMENTAL implementation of side graph☆10Apr 16, 2015Updated 11 years ago
- A scalable genome browser. Apache 2 licensed.☆127Dec 2, 2022Updated 3 years ago
- The CHM1-NA12878 benchmark for single-sample SNP/INDEL calling from WGS Illumina data☆32Feb 20, 2018Updated 8 years ago
- Official code repository for GATK versions 1.0 through 3.7 (core engine). For GATK 4 code, see the https://github.com/broadinstitute/gatk…☆304Aug 22, 2018Updated 8 years ago
- It's a methods repository!☆10Oct 9, 2026Updated 3 weeks ago
- Galaxy Github repository BETA 1. May be destroyed and recreated if post-conversion problems are found (but post-conversion commits on thi…☆12Feb 20, 2015Updated 11 years ago
- deBGR: An Efficient and Near-Exact Representation of the Weighted de Bruijn Graph☆31Jan 19, 2021Updated 5 years ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- run-length BWT tools for genomic sequences☆18May 19, 2022Updated 4 years ago
- Tools for next-generation sequencing analysis☆90Jun 25, 2019Updated 7 years ago
- MetaSRA: normalized sample-specific metadata for the Sequence Read Archive☆47Aug 28, 2026Updated 2 months ago
- A Bayesian method for doing transcriptome assembly from RNA-seq data☆25Feb 2, 2015Updated 11 years ago
- Flexible genotype query among 30,000+ samples whole-genome☆95Sep 4, 2019Updated 7 years ago
- Helper functions to use knitr as a lab notebook☆13Jan 4, 2013Updated 13 years ago
- Trigger the Google Genomics Pipeline API with CWL☆11Feb 7, 2017Updated 9 years ago