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

OxyBS

Online

A method using maximum likelihood estimation to accurately estimate the parameters of unmethylated cytosine (5C), 5mC and 5hmC from Infinium microarray data given the signal intensities from the oxBS and BS replicates. The OxyBS tool can readily be applied to both the Illumina 450K and MethylationEPIC arrays as well as sequencing data with read counts for the four input data types (BS-methylated, BS-unmethylated, oxBSmethylated, and oxBS-unmethylated).

User report

tutorial arrow
×
Vote up tools and offer feedback
Give value to tools and make your expertise visible

0 user reviews

0 user reviews

No review has been posted.

OxyBS forum

tutorial arrow
×
Communicate with other users
Participate in the forum to get support for using tools. Ask questions about technical specifications.

No open topic.

OxyBS 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.

No versioning.

OxyBS classification

OxyBS specifications

Software type:
Package/Module
Restrictions to use:
None
Biological technology:
Illumina
Programming languages:
R
Version:
1.0
Source code URL:
https://github.com/Christensen-Lab-Dartmouth/OxyBS
Interface:
Command line interface
Output data:
The output is a user-friendly array containing estimates of 5C, 5mC, and 5hmC for each CpG on the array.
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes

OxyBS support

Documentation

Maintainer

  • Andres Houseman <>

Credits

tutorial arrow
×
Promote your skills
Define all the tasks you managed and assign your profile the appropriate badges. Become an active member.

Publications

Institution(s)

School of Biological and Population Health Sciences, College of Public Health and Human Sciences, Oregon State University, Corvallis, OR, USA; Department of Pharmacology and Toxicology, Geisel School of Medicine at Dartmouth, Hanover, NH, USA; Department of Epidemiology, Geisel School of Medicine at Dartmouth, Hanover, NH, USA

Funding source(s)

This work has been supported by the National Institutes of Health [grant numbers R01 MH094609, P20GM104416/8189].

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