Question: Conversion Between Hg18 And Hg19
4
gravatar for Perry
9.2 years ago by
Perry290
philadelphia
Perry290 wrote:

I want to draw chromosome ideogams with chromosome location data. I'm using the quantsmooth library in R, as described in this BioStar question. The quantsmooth plots are for hg18, but my data are for hg19. Is there an easy way to convert my hg19 chromosome positions to hg18 positions?

I'm looking for an existing map (hg19 chr 1, base 25 -> hg18 chr 1, base 20), or a conversion formula.

conversion hg • 17k views
ADD COMMENTlink written 9.2 years ago by Perry290

This post describes various tools for coordinate conversions: Converting Genome Coordinates From One Genome Version To Another (Ucsc Liftover, Ncbi Remap, Ensembl Api)

ADD REPLYlink written 2.2 years ago by Malachi Griffith18k
9
gravatar for brentp
9.2 years ago by
brentp23k
Salt Lake City, UT
brentp23k wrote:

Have a look at this question which references liftOver.

ADD COMMENTlink modified 11 weeks ago by RamRS24k • written 9.2 years ago by brentp23k
2
gravatar for Ian
9.2 years ago by
Ian5.5k
University of Manchester, UK
Ian5.5k wrote:

FYI there is also an implementation of liftOver in Galaxy. See 'Lift-Over' on the left hand tools panel.

ADD COMMENTlink modified 11 weeks ago by RamRS24k • written 9.2 years ago by Ian5.5k
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