Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
MACS wig files on UCSC? yh253 Bioinformatics 5 08-30-2013 02:13 AM
How to compare two WIG files?? tfcheng Bioinformatics 1 08-28-2013 01:23 AM
wig files gfmgfm Bioinformatics 3 08-14-2010 08:45 PM
WIG files suludana Bioinformatics 1 03-04-2009 02:52 PM
view .wig files alperyilmaz Bioinformatics 7 02-16-2009 08:13 AM

Thread Tools
Old 05-08-2012, 01:38 AM   #1
Junior Member
Location: England

Join Date: Jan 2011
Posts: 5
Default narrowpeak data from wig files?


I've downloaded some chip-seq data from geo ( and the only option is .wig format. I'd like the data in an 'ENCODE narrowPeak' style; i.e. something like

chromosome start stop strand score p-value
The original paper used macs for peak finding but it seems wig files are output from this tool not input! Can anyone tell me how to get .wig data into a peak list format I can make use of?

Many thanks
john789 is offline   Reply With Quote
Old 08-28-2013, 01:13 AM   #2
Bioinformatics Engineer
Location: University of Cambridge, UK

Join Date: Jun 2010
Posts: 14
Default Narrow peaks in ChIP-seq WIG files

Hi John,

The Bioconductor package NarrowPeaks

is able to do what you mention. It takes a WIG files and analyzes the shape of candidate regions over a continuum to identify narrow peaks.

Pedro Madrigal
pmad is offline   Reply With Quote

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off

All times are GMT -8. The time now is 07:56 AM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2019, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO