dandelion

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IGDATA vs. IGBLAST_DB Confusion + Other Installation kerfuffles

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### Description of the bug Hi! This is a wonderful tool--I've been playing with it since it was a biorxiv piece, so glad to see it published and out in...

indianewok

prepare for python 3.12

1

zktuong

Singularity Container Preprocessing Error

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### Description of the bug Hi Zewen, Great package and love the container you made! I was trying to do preprocessing manually myself but had some issues with file paths....

bpr4242

non-10x input (just fasta) e.g. immunoseq

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### Description of the issue Feature request by @[email protected] `I would like to check if we could run the data output from the immunoseq ? I have a BCR dataset...

zktuong

### Description of the issue doesn't seem to take in the correct colors

zktuong

Restore global pairwise distance calculation

1

### Description of the issue Wither version 0.2.4 onwards, the decision was to speed up the calculation only per clone, but i would like to try and reimplement a global...

zktuong

sfdp layout doesn't scale well with large datasets

2

### Description of the issue it then just gives up and plots it as a square....

zktuong

### Description of the issue to just be something like ```python for grp in ['untreated', 'day1', 'week1']: vdj_data = tdata[tdata.obs["TimePoint"] == grp].copy() groupby = 'Group_TimePoint' clone_key = None palette =...

zktuong

Resurfacing this just in case ### Discussed in https://github.com/zktuong/dandelion/discussions/146 Originally posted by **zktuong** April 29, 2021 So there's a couple of issues that may happen when running via a notebook...

zktuong

Updates the requirements on [scirpy](https://github.com/scverse/scirpy) to permit the latest version. Release notes Sourced from scirpy's releases. v0.17.0 See the release notes for more details. Changelog Sourced from scirpy's changelog. v0.17.0...

dependabot[bot]