Main logo
?
tutorial arrow
×
Create your own tool library
Bookmark tools and put favorites into folders to find them easily.

MSClust | A Multi-Seeds based Clustering algorithm for microbiome profiling using 16S rRNA sequence

An adaptive multi-seeds based heuristic clustering method that avoids the large memory need for storing seeds and/or distance matrix. MSClust uses a greedy heuristic strategy to build one cluster at a time. Each cluster is expanded from a limited initial set with multi-seeds, where the initial multi-seeds are generated based on an adaptive strategy. Unassigned sequences are then compared to the seeds sequentially. A new sequence is added to the current cluster and removed from the input if the average distance between the sequence and seeds is smaller than the user-defined threshold; otherwise, the sequence is marked as unassigned.

User report

tutorial arrow
×
Vote up tools and offer feedback
Give value to tools and make your expertise visible
Give your feedback on this tool
Sign up for free to join and share with the community

0 user reviews

star_border star_border star_border star_border star_border
star star star star star

0 user reviews

star_border star_border star_border star_border star_border
star star star star star

No review has been posted.

MSClust forum

tutorial arrow
×
Communicate with other users
Participate in the forum to get support for using tools. Ask questions about technical specifications.
Take part in the discussion
Sign up for free to ask question and share your advices

No open topic.

MSClust classification

MSClust specifications

Unique identifier:
OMICS_01954
Software type:
Package/Module
Restrictions to use:
None
Computer skills:
Advanced
Maintained:
Yes
Name:
Multi-Seeds based Clustering algorithm
Interface:
Command line interface
Operating system:
Unix/Linux
Stability:
Stable

MSClust distribution

versioning

tutorial arrow
×
Upload and version your source code
Get a DOI for each update to improve tool traceability. Archive your releases so the community can easily visualize progress on your work.
Facilitate your tool traceability
Sign up for free to upload your code and get a DOI

No versioning.

MSClust support

Maintainer

  • Hongyu Zhao <>

Credits

tutorial arrow
×
Promote your skills
Define all the tasks you managed and assign your profile the appropriate badges. Become an active member.
Promote your work
Sign up for free to badge your contributorship

Publications

Institution(s)

College of Automation, Northwestern Polytechnical University, XI'an, China; Department of Biostatistics, Yale School of Public Health, New Haven, CT, USA; Keck Biotechnology Laboratory, Biostatistics Resource, Yale School of Medicine, New Haven, CT, USA

Funding source(s)

This work was supported in part by NIH GM59507, UL1 RR024139, National Natural Science Foundation of China (No. 61170134), Aeronautical Science Foundation of China (No.20100853010) and Doctorate Foundation of Northwestern Polytechnical University (No. cx201017).

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.