swDMR: a sliding window approach to identify DMR based on bisulfite sequencing

[xfliwz]

swDMR is a sliding window approach, which is used to identify differentially methylated regions (DMRs) from bisulfite sequencing dataset at single base resolution. The dataset, like whole genome bisulfite sequencing (WGBS) or reduced representation bisulfite sequencing (RRBS) with the same coverage region of samples, are suitable for swDMR.
This software integrated several useful statistics methods, satisfying to two or multiple samples test. It is flexible to identify DMRs from samples with several options. In addition, swDMR provides genomic features annotation with BED or GFF file. It can also produce WIG format file to upload to UCSC genome browser for DMRs visualization.
To successfully run this software, Perl v5.8.8 or later and R 2.12.0 or later are recommended.

Detail information is at http://seqanswers.com/wiki/SwDMR
swDMR can be accessed at http://122.228.158.106/swDMR

If you have any question, please don't hesitate to contact us.

[zinky]

hi, i try to use this tool to do analysis , but i find the links here cannot be openned, can u send me a copy of it as well as some illustrations ,thanks a lot! my mail: [email protected]

[xfliwz]

swDMR source code

hi, i try to use this tool to do analysis , but i find the links here cannot be openned, can u send me a copy of it as well as some illustrations ,thanks a lot! my mail: [email protected]

Sorry for the unstable web, you can also download swDMR on http://code.google.com/p/swdmr/

Wish that helps! Welcome for any sugestion!

[zinky]

Thank you very much!

[bioinfo816]

result file information

hi xfliwz,

I used the tool, found very interesting but not able to understand the result file because there is no header. Therefore, please provide more information about the intermediate steps and result file.

Thanks.