Ecosyste.ms: Issues

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GitHub / ShobiStassen/PARC issues and pull requests

#46 - `requirements.txt` and `setup.py`

Pull Request - State: open - Opened by ahill187 about 1 month ago

#45 - Input data types

Pull Request - State: open - Opened by ahill187 about 1 month ago

#44 - Tests

Pull Request - State: open - Opened by ahill187 about 1 month ago

#43 - Unnecessary copy of edgelist?

Issue - State: open - Opened by Stein-ErikG about 1 month ago - 1 comment

#42 - `small_pop` not found

Issue - State: open - Opened by ahill187 about 2 months ago

#41 - Fix `small_community_size` bug

Pull Request - State: open - Opened by ahill187 about 2 months ago

#40 - Refactor `make_knn_struct`

Pull Request - State: open - Opened by ahill187 about 2 months ago

#39 - Factor out `prune_global`

Pull Request - State: open - Opened by ahill187 about 2 months ago

#38 - New argument `jac_threshold_type`

Pull Request - State: open - Opened by ahill187 about 2 months ago

#37 - Refactor `prune_local`

Pull Request - State: open - Opened by ahill187 about 2 months ago

#36 - Refactor `knngraph_full` -> `create_knn_graph`

Pull Request - State: open - Opened by ahill187 about 2 months ago

#35 - Factor out `get_leiden_partition`

Pull Request - State: open - Opened by ahill187 about 2 months ago

#34 - Factor out `compute_performance_metrics`

Pull Request - State: open - Opened by ahill187 about 2 months ago

#33 - Add docstrings and properties to the constructor

Pull Request - State: open - Opened by ahill187 about 2 months ago

#32 - Variable renaming

Pull Request - State: open - Opened by ahill187 about 2 months ago

#31 - `func_mode` -> `get_mode`

Pull Request - State: open - Opened by ahill187 about 2 months ago

#30 - Code cleanup

Pull Request - State: open - Opened by ahill187 about 2 months ago

#29 - Add logging

Pull Request - State: open - Opened by ahill187 about 2 months ago

#28 - Refactor `prune_local`

Pull Request - State: closed - Opened by ahill187 2 months ago

#27 - Update _parc.py

Pull Request - State: closed - Opened by ShobiStassen 4 months ago

#26 - Fix simplicial set embedding bug

Pull Request - State: closed - Opened by ahill187 7 months ago - 1 comment

#25 - `run_umap_hnsw` doesn't work

Issue - State: closed - Opened by ahill187 7 months ago

#24 - Minor bug in run_toobig_subPARC

Issue - State: closed - Opened by santoshputta 11 months ago

#23 - Import of umap increases PARC import time

Issue - State: open - Opened by JcGKitten over 1 year ago - 1 comment

#22 - Hyperclustering with PARC

Issue - State: open - Opened by peterpath over 1 year ago - 1 comment

#21 - Questions on using PARC for identifying plasma cells

Issue - State: open - Opened by nilaj-c about 2 years ago - 1 comment

#20 - RStudio crashing when clustering a large dataset

Issue - State: open - Opened by Stein-ErikG about 2 years ago - 12 comments

#19 - Hello! I am getting AttributeError, when trying to import parc

Issue - State: closed - Opened by quantumkisa over 2 years ago - 2 comments

#18 - Python igraph

Issue - State: closed - Opened by luglilab over 2 years ago - 4 comments

#17 - Question on pruning big cluster

Issue - State: closed - Opened by ivan-marroquin almost 3 years ago - 2 comments

#16 - Error when running UMAP

Issue - State: open - Opened by rjesud over 3 years ago - 3 comments

#15 - About the true labels for calculating the F1 scores

Issue - State: open - Opened by li000678 over 3 years ago - 2 comments

#14 - Relaxation of leidenalg==0.7.0 requirement?

Issue - State: closed - Opened by ajitjohnson almost 4 years ago - 2 comments

#13 - Fixed Bug: pre-computed neighbors-graph and small clusters

Pull Request - State: closed - Opened by tommycelsius over 4 years ago

#12 - Added class parameter for pre-computed nearest neighbor graph.

Pull Request - State: closed - Opened by tommycelsius over 4 years ago

#11 - Tips for replicating the performance on the lung cell clustering

Issue - State: closed - Opened by tom-b over 4 years ago - 3 comments

#10 - any plan to release an R version of PARC?

Issue - State: open - Opened by cirobotta over 4 years ago - 4 comments

#9 - Controlling the number of clusters

Issue - State: closed - Opened by ajitjohnson over 4 years ago - 4 comments

#8 - Amazing work!

Issue - State: open - Opened by SansMorel over 4 years ago - 6 comments

#7 - Bugs in Example Usage 3

Issue - State: closed - Opened by esimonds over 4 years ago - 2 comments

#6 - Example Usage 2 has some code typos

Issue - State: closed - Opened by esimonds over 4 years ago - 2 comments

#5 - np.reshape error if too many edges are pruned

Issue - State: closed - Opened by ezunder almost 5 years ago - 1 comment

#4 - Add vertices explicitly during G_sim construction.

Pull Request - State: closed - Opened by ezunder almost 5 years ago

#3 - pip install issue: Mac OS X and AWS Linux

Issue - State: open - Opened by wyattmcdonnell almost 5 years ago - 3 comments

#2 - Easy distance metric and thread usage

Pull Request - State: closed - Opened by wyattmcdonnell almost 5 years ago

#1 - Add support for reproducible Leiden clustering

Pull Request - State: closed - Opened by wyattmcdonnell almost 5 years ago