pyGenomeTracks
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deeptools
python module to plot beautiful and highly customizable genome browser tracks
TODO list
I put here what I would like to put in pygenometracks. Far future: - BAM track - add the possibility to make background - put the barcolorscale aligned below.
@sansere would like to visualize bedpe files from iMARGI/RADICL etc. data in combination with other sequencing data from independent coordinates and chromosomes at once. For example DNA at chr1 and...
First, thanks for making a great tool. I have found it really useful. I had an idea similar to (but distinct from) #219 which I think people would find particularly...
cosmetic changes in attempt to make the code structure clearer
Hi, (This PR has been built on top of abstract_classes this is why there are so many changes.) The idea of this PR is to remove the need of DPI...
Hi, an option to use one region per track. Instead of `--region chr1:1-5` this could be placed a) as `region=chr1:1-5` as a part of the track definition or b) that...
Would it be possible to define a default section (e.g. [default]) to set global parameters for all tracks? This would also allow to simplify the output of make_tracks_file, which currently...
I will be adapting code to plot reads from bam files directly. At my [fork](https://github.com/shouldsee/pyGenomeTracks)
Hi, I think it is currently impossible to plot tracks vertically, i.e. with swapped x and y axes? I think this would be a very useful option for Hi-C maps...
A user asked how to plot TADCompare output in pgt. The goal is to use [TADCompare](https://www.frontiersin.org/articles/10.3389/fgene.2020.00158/full) and display results in pgt (similar to Figure 5 of the paper). The output...