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

Rapid Identification of Non-human Sequences RINS

An intersection-based pathogen detection workflow that utilizes a user-provided custom reference genome set for identification of non-human sequences in deep sequencing datasets. RINS is optimized for mate-paired high-throughput sequencing data with reads at least 36 bp and up to 500 bp, and can be run on sequencing data from any species. Non-paired end sequencing data can also be used, though contig generation and extension will be less robust. In <2 h, RINS correctly identified the known virus in the dataset SRR73726 and is compatible with any computer capable of running the prerequisite alignment and assembly programs. RINS accurately identifies sequencing reads from intact or mutated non-human genomes in a dataset and robustly generates contigs with these non-human sequences.

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

0 user reviews

No review has been posted.

RINS 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.

RINS classification

  • Viruses

RINS specifications

Software type:
Package/Module
Restrictions to use:
None
Computer skills:
Advanced
Maintained:
Yes
Interface:
Command line interface
Operating system:
Unix/Linux
Stability:
Stable

RINS 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.

RINS support

Documentation

Maintainer

  • Aparna Bhaduri <>

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)

Veterans Affairs Palo Alto Healthcare System, Palo Alto, CA, USA; the Program in Epithelial Biology, Stanford University School of Medicine, Stanford, CA, USA

Funding source(s)

USVA Office of Research and Development, NIH/NIAMS AR49737

Link to literature

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