search

adamewing / methylartist

Tools for plotting methylation data in various ways
MIT License
114 stars 9 forks source link

Change the position of the sample name #9

Closed njaupan closed 1 year ago

njaupan commented 2 years ago

Hi Love this tool !!!

I just found out that the sample name is the same as the bam file name, I would like to ask 1) How can I change the position of the sample name or allow not to show it?

2) For the annotation file, is it possible to choose to show transposable elements without exons from gtf?

adamewing commented 2 years ago

Hi, thanks for your enthusiasm regarding methylartist!

  1. I would recommend outputting the image as a vector graphic (--svg) and then moving or removing the sample name(s) in Illustrator/Inkscape/Affinity Design/etc.

  2. Right now for something to show up in the gene track it needs a gene_id, and a gene_name attribute. If it doesn't have any exone it'll just show up as a line which probably isn't what you want. If you want to display custom data this way I would make sure it has those two attributes and call it an exon. Additional annotation display options (e.g. via a BED file) are a feature I'm planning on adding very soon so if it's not urgent I hope this will be much easier within a few weeks.

adamewing commented 1 year ago

Closing old issues, Should also note that --bed was added some time ago.