PARC

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# Description The function `simplicial_set_embedding` from the [UMAP repository](https://github.com/lmcinnes/umap/blob/master/umap/umap_.py) has changed the required arguments, and so the PARC function `run_umap_hnsw` no longer works. See [Issue #25](https://github.com/ShobiStassen/PARC/issues/25). In this PR, I...

ahill187

## Version Information ``` Python 3.10 MacOSx ``` ## Error When calling `run_umap_hnsw` in the example in the `README`, I get the following error: ``` --------------------------------------------------------------------------- TypeError Traceback (most recent...

ahill187

The comparison of cluster size on lines 232 and 256 in _parc.py, I think, should be to self.small_pop instead of the hard-coded value of 10

santoshputta

Import of umap increases PARC import time

1

Hey, I was wondering if the import of `umap` in line 8 of `_parc.py` is necessary, cause it slows down the import of PARC and the only function using `umap`...

JcGKitten

Hyperclustering with PARC

1

Thank you for this excellent tool! We are attempting to generate many more clusters than achieved with default parameters. The application is AML-MRD detection by flow cytometry. So far very...

peterpath

RStudio crashing when clustering a large dataset

12

Hi, Thank you so much for the excellent package! I have managed to get your code working in RStudio (using reticulate) on my new macbook Pro M1 Max 64 GB...

Stein-ErikG

Questions on using PARC for identifying plasma cells

1

Hi, I am trying to use PARC for Flow Cytometry and I want to identify Plasma cells which is usually done by manually gating on CD38 and CD138. The gate...

nilaj-c

Error when running UMAP

3

Hi, Great package! I am trying to run PARC's UMAP implementation but I receive the following error:  It appears that this issue has popped up here: https://github.com/theislab/scanpy/issues/1579 I tried...

rjesud

About the true labels for calculating the F1 scores

2

Hi, I am interested in testing the PARC in more datasets. I am wondering what is the source of the true labels? do you use the labels provided by the...

li000678

any plan to release an R version of PARC?

4

Very interesting work, I was thinking to include this method in my cytometry pipeline (it will be released soon). Are you planning a release fo R?

cirobotta