package circlize: How to add padding to circos.genomicInitialize()?
Hi,
I wanted to use the 'circlize' package to make some genomic graphs. I wanted to follow the example given in the vignette/manual (https://jokergoo.github.io/circlize_book/book/initialize-genomic-plot.html - section 9.3)
tp_family = readRDS(system.file(package = "circlize", "extdata", "tp_family_df.rds"))
head(tp_family)
## gene start end transcript exon
## 1 TP53 7565097 7565332 ENST00000413465.2 7
## 2 TP53 7577499 7577608 ENST00000413465.2 6
circos.genomicInitialize(tp_family)
My questions:
- How can I modify the sample data to incude the 5' and 3' UTRs?
- How can I extend the x range for the gene such that the plot shows +/- 2kbp from the 5' and 3' ends?
thanks for your help!
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bsmith030465
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You may have better luck asking here: https://support.bioconductor.org/t/circlize/ - it looks like the author visits that site more often than this one. Also, there is no reason to add the author's username as a tag.
Hello bsmith030465!
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