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tpoorten / dotPlotly

Generate an interactive dot plot from mummer or minimap alignments
MIT License
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Sort chromosomes by name #8

Open jhtrujillo opened 3 years ago

jhtrujillo commented 3 years ago

Hello,

May I sort the dot plot graph by the name of chromosomes from the genome reference?

thank you!

WTarabidopsis commented 2 years ago

Hi, have you solved this problem? I also want to order the chromosomes as I like, but dotPlotly is always sorted based on its on method.

jhtrujillo commented 2 years ago

Hi, have you solved this problem? I also want to order the chromosomes as I like, but dotPlotly is always sorted based on its on method.

I couldn't do it using this tool. After several attempts, I succeeded using Synmap.

WTarabidopsis commented 2 years ago

Hi, have you solved this problem? I also want to order the chromosomes as I like, but dotPlotly is always sorted based on its on method.

I couldn't do it using this tool. After several attempts, I succeeded using Synmap.

Thanks so much!

aaronphillips7493 commented 2 years ago

There's a part of the .R script that sorts the target sequence by size. I tried running the script without this part but the result of the sort is needed in subsequent steps down the line. I am in a hurry to re-submit a manuscript that uses dotPlotly and don't know enough R coding to be able to quickly fix this. The reviewers were confused by the ordering. Can the devs please propose a solution?

chywish commented 2 years ago

There's a part of the .R script that sorts the target sequence by size. I tried running the script without this part but the result of the sort is needed in subsequent steps down the line. I am in a hurry to re-submit a manuscript that uses dotPlotly and don't know enough R coding to be able to quickly fix this. The reviewers were confused by the ordering. Can the devs please propose a solution?

hi, you can try with the -r opition to solve the problem of the target chromsome order number .