SuRankCo

SuRankCo is a machine learning based software to score and rank contigs from de novo assemblies of next generation sequencing data. It trains with alignments of contigs with known reference genomes and predicts scores and ranking for contigs which have no related reference genome yet.

For more details about SuRankCo and its functioning, please see

"SuRankCo: Supervised Ranking of Contigs in de novo Assemblies"
Mathias Kuhring, Piotr Wojtek Dabrowski, Andreas Nitsche and Bernhard Y. Renard
(http://www.biomedcentral.com/1471-2105/16/240/abstract)

PLEASE NOTE, it is recommended to read the paper and the readme.txt file before using SuRankCo.

Update Jun2015:
* Minor changes to enable BAM support.
Update Feb2014:
* Added support for FASTA/SAM assemblies in addition to ACE/FASTQ(QUAL).
NOTE: features of FASTA/SAM assemblies do not include BaseCount, BaseSeqmentCount and ContigQualities yet.

Project Activity

See All Activity >

License

BSD License

Follow SuRankCo

SuRankCo Web Site

Other Useful Business Software

Gemini 3 and 200+ AI Models on One Platform

Access Google's best plus Claude, Llama, and Gemma. Fine-tune and deploy from one console.

Build generative AI apps with Vertex AI. Switch between models without switching platforms.

Start Free

Rate This Project

User Reviews

Be the first to post a review of SuRankCo!

Additional Project Details

Operating Systems

Linux, Mac

Intended Audience

Science/Research

User Interface

Command-line

Programming Language

Java, S/R

Related Categories

Java Bio-Informatics Software, Java Machine Learning Software, S/R Bio-Informatics Software, S/R Machine Learning Software

Registered

2013-12-06

Similar Business Software

Geneious

Geneious Prime makes bioinformatics accessible by transforming raw data into visualizations that make sequence analysis intuitive and user-friendly. Simple sequence assembly and easy editing of contigs. Automatic annotation for gene prediction, motifs, translation, and variant calling. Genotype...

See Software
Vertex AI

Build, deploy, and scale machine learning (ML) models faster, with fully managed ML tools for any use case. Through Vertex AI Workbench, Vertex AI is natively integrated with BigQuery, Dataproc, and Spark. You can use BigQuery ML to create and execute machine learning models in BigQuery...

See Software
Fraud.net

Fraudnet's AI-driven platform empowers enterprises to prevent threats, streamline compliance, and manage risk in real-time. Our sophisticated machine learning models continuously learn from billions of transactions to identify anomalies and predict fraud attacks. Our unified solutions:...

See Software
Google Cloud BigQuery

BigQuery is a serverless, multicloud data warehouse that simplifies the process of working with all types of data so you can focus on getting valuable business insights quickly. At the core of Google’s data cloud, BigQuery allows you to simplify data integration, cost effectively and securely...

See Software
Teradata VantageCloud

Teradata VantageCloud: The complete cloud analytics and data platform for AI. Teradata VantageCloud is an enterprise-grade, cloud-native data and analytics platform that unifies data management, advanced analytics, and AI/ML capabilities in a single environment. Designed for scalability and...

See Software
RunPod

RunPod offers a cloud-based platform designed for running AI workloads, focusing on providing scalable, on-demand GPU resources to accelerate machine learning (ML) model training and inference. With its diverse selection of powerful GPUs like the NVIDIA A100, RTX 3090, and H100, RunPod supports...

See Software