LiftUp format: Difference between revisions
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LiftUp can convert coordinates in most annotation files. It can add to positions and change the chromosome part of those files. It's main input is the lift-file that specifies how to convert the coordinates. | |||
The format is: | The format is: | ||
Revision as of 16:06, 21 November 2007
LiftUp can convert coordinates in most annotation files. It can add to positions and change the chromosome part of those files. It's main input is the lift-file that specifies how to convert the coordinates.
The format is:
offset oldName oldSize newName newSize
An example:
0 frag1 1000 chr1 5000 1001 frag2 1000 chr1 1000
Typing this command:
liftUp stdout -type=.bed test.lft warn test.bed
will lift the following feature
frag2 1100 1200 voila
to the following one:
chr1 2101 2201 voila
