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lilab-bcb
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pegasus
A tool for analyzing trascriptomes of millions of single cells.
https://pegasus.readthedocs.io
BSD 3-Clause "New" or "Revised" License
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Potential Bug in Infer Doublets
#313
hl-xue
opened
1 month ago
0
Buffer dtype mismatch when running de_analysis on AnnData object from scanpy (with testcase)
#312
hvbakel
opened
1 month ago
0
How to Embed BBKNN Results into MultimodalData?
#311
x1han
opened
1 month ago
0
Questions about installation of the version "infercnv"
#310
Richard-D-Watson
opened
1 month ago
1
Bug fix for deseq2 function with one contrast
#309
yihming
closed
2 months ago
0
Fix mouse lung markers not found issue
#308
borcuttjahns
closed
3 months ago
0
Added bimodality index to doublet detection
#307
bli25
closed
3 months ago
0
Fix bug in writing GSEA results to file
#306
yihming
closed
3 months ago
0
Reorganize GSEA function
#305
yihming
closed
3 months ago
0
Deseq2 allows inference with multiple contrasts in the same model
#304
yihming
closed
3 months ago
0
Fix deseq2
#303
yihming
closed
3 months ago
0
Several updates
#302
bli25
closed
3 months ago
0
Reorganize GSEA functions
#301
yihming
closed
3 months ago
0
Reorganize pseudobulk and deseq2 functions
#300
yihming
closed
3 months ago
0
using cellbender outputs
#299
jackhump
closed
3 months ago
2
Added function to find NMF programs (searching K)
#298
bli25
closed
3 months ago
0
Reorganize pseudobulk analysis functions
#297
yihming
closed
3 months ago
0
Enforce dissimilarity matrix with main diagonal 0s
#296
yihming
closed
4 months ago
0
New version of dendrogram
#295
yihming
closed
4 months ago
0
Improve Scatter and Spatial plots
#294
yihming
closed
4 months ago
0
Allow change label font size in GSEA plot
#293
yihming
closed
6 months ago
0
Add show_only_expressed option to dotplot
#292
yihming
closed
6 months ago
0
Spatial and Scatter plot
#291
yihming
closed
6 months ago
0
Enforce dense or csr_matrix type for calculate_z_score function
#290
yihming
closed
6 months ago
0
Boli
#289
bli25
closed
6 months ago
0
Inconsistent z-score calculation for CSC and CSR sparse matrices
#288
jkanche
closed
6 months ago
4
Harmony data integration accepts multiple attributes as batch key
#287
yihming
closed
7 months ago
0
Fix heatmap
#286
yihming
closed
7 months ago
0
Update CI test
#285
yihming
closed
8 months ago
0
Plot skip attributes/genes not in data
#284
yihming
closed
8 months ago
0
Fix violin plot for Seaborn v0.13+
#283
yihming
closed
8 months ago
0
Updated heatmap function
#282
bli25
closed
8 months ago
0
Address a few frequent matrix dtype conversion errors
#281
hvbakel
closed
8 months ago
4
[ERROR] ValueError: Buffer dtype mismatch, expected 'const float' but got 'unsigned int'
#280
brauliovaldebenitomaturana
closed
8 months ago
2
Expose online_batch_size in nmf and integrative_nmf functions
#279
yihming
closed
11 months ago
0
Fix a typo in human_lung cell marker JSON file
#278
yihming
closed
1 year ago
0
Improve plotting functions
#277
yihming
closed
8 months ago
0
only convert sparse matrices to numpy arrays
#276
jkanche
closed
8 months ago
0
Improve doublet detection and cell markers
#275
bli25
closed
1 year ago
0
Fixed a typo
#274
bli25
closed
1 year ago
0
Subset using a list of barcodes
#273
yoavhadas
opened
1 year ago
4
Updated nearest neighbor search function to a) set use_cache to False by default and b) adjust K to min(K, int(sqrt(nsample)))
#272
bli25
closed
1 year ago
0
Error with pegasus.calc_kBET
#271
hl-xue
opened
1 year ago
0
Added CD4 CTL markers
#270
bli25
closed
1 year ago
0
Updated T cell subtype markers
#269
bli25
closed
1 year ago
0
Update doublet_detection.py
#268
hoondy
closed
1 year ago
2
Updated NK cell and NK subtype markers
#267
bli25
closed
1 year ago
0
how to subplot in pegasus?
#266
x1han
closed
2 weeks ago
2
Error with FLE
#265
Zifeng-L
closed
8 months ago
2
Updated neutrophil markers
#264
bli25
closed
1 year ago
0
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