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ComparativeGenomicsToolkit / hal

Hierarchical Alignment Format
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Strand Information in halLiftover #265

Closed imk1 closed 1 year ago

imk1 commented 1 year ago

If strand information is input into halLiftover, is there a way to obtain the strand for the output? Thanks!

diekhans commented 1 year ago

If you use the --outPSL or --outPSLWithName name, you get a pair-wise alignment in UCSC PSL format, which will have the strand.

Slack me if you have more questions ;-)

Irene Kaplow @.***> writes:

If strand information is input into halLiftover, is there a way to obtain the strand for the output? Thanks!

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