https://divingintogeneticsandgenomics.com/tags/wig/ Recent content in Wig on Chatomics Hugo -- gohugo.io en-us © 2018 Ming 'Tommy' Tang Fri, 04 Apr 2014 14:44:00 -0700 https://divingintogeneticsandgenomics.com/archive/liftover-wig-file/ Fri, 04 Apr 2014 14:44:00 -0700 https://divingintogeneticsandgenomics.com/archive/liftover-wig-file/ I was looking at a public ChIP-seq data set, but the author did not put the raw sequence data in the GEO database. Instead, they uploaded a wig file of the ChIP-seq signal file and it was mapped to human hg18 reference genome. All the other data sets I am analyzing are mapped to hg19, so I have to liftover this wig file to hg19 also. Solution: CrossMap! http://crossmap.sourceforge.net/ https://divingintogeneticsandgenomics.com/archive/hosting-bigwig-by-dropbox-for-ucsc-visualization/ Tue, 18 Feb 2014 12:53:00 -0800 https://divingintogeneticsandgenomics.com/archive/hosting-bigwig-by-dropbox-for-ucsc-visualization/ First, you need to get an idea of what is a bigwig file: https://genome.ucsc.edu/goldenPath/help/bigWig.html It is the binary form of wig file and allows UCSC genome browser to fetch only the data in the current window. I usually get wig file by MACS1.4 peak calling ChIP-seq data. MACS2 now does not have the -w option any more. https://github.com/taoliu/MACS/ see a discussion in the google group: https://groups.google.com/forum/#!searchin/macs-announcement/bedgraph$20ucsc$20track/macs-announcement/LBhAtmC-Zho/uZuxU8ZaqdEJ MACS2 only creates a bedgraph file http://genome.