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Bedlike file support added #138

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smitkadvani
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@smitkadvani smitkadvani commented Sep 29, 2023

Description

What was changed in this pull request?

  • this PR adds support to load bedlike file using higlass python

Why is it necessary?

How to use the function :
Convert the bed file.

clodius aggregate bedfile --chromsizes-filename hg19.chrom.sizes short.bed
(More information- )

Example :

import higlass as hg

tileset = hg.beddb(file_path)  # nipbl_bed

view = hg.view(
    hg.track("top-axis"),
    tileset.track("chromosome-labels"),
    tileset.track("bedlike", height=100).opts(
        name="h3k27ac"
    )
)

view

Fixes #___

Checklist

  • Unit tests added or updated
  • Update examples.ipynb notebook
  • Documentation added or updated
  • Updated CHANGELOG.md
  • Ran black on the root directory

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@manzt manzt left a comment

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Thanks for the contribution, and apologies for the delay on this. I missed the PR but am now watching for all activity in the repo.

@manzt manzt merged commit a2c00ff into higlass:main Oct 3, 2023
5 of 6 checks passed
manzt pushed a commit that referenced this pull request Oct 3, 2023
@smitkadvani
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No problem, thank you for merging,

@manzt
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manzt commented Oct 3, 2023

Released in v1.1.0!

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2 participants