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54 Open 66 Closed
54 Open 66 Closed
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Issues list

Inconsistencies in cell numbers
#122 opened Nov 5, 2024 by yitengfei120011
Option for users to set the seed
#121 opened Oct 9, 2024 by sjspielman
Error in hclust(d, method = "ward.D2"): size cannot be NA nor exceed 65536
#120 opened Aug 28, 2024 by ChenlingTangMDA
1
Include all genes in copykat_CNA_raw_results_gene_by_cell.txt.
#119 opened Aug 14, 2024 by Prakrithi-P
New human reference T2T CHM13
#118 opened Jul 31, 2024 by ywzhang071394
How to change min.gene.per.cell
#117 opened Jul 22, 2024 by Rayan21100
1
Output files are written to working directory
#116 opened May 2, 2024 by rVMLql58
3
Does it make sense to run copykat on tumor samples containing very low number of normal epithelial cells?
#115 opened Apr 26, 2024 by kaizen89
1
Outputs Heatmap Copykat
#114 opened Apr 2, 2024 by LeaLe88
Error in step 2: arguments imply differing number of rows
#112 opened Mar 20, 2024 by carbui
1
Diploid and aneuploid reversed
#111 opened Mar 8, 2024 by LeaLe88
Example breast tumours Error in Step 4 - heatmap
#109 opened Mar 6, 2024 by LeaLe88
Tumor subclone
#108 opened Feb 2, 2024 by Mashuaiii
macrophages with CNV?
#107 opened Nov 23, 2023 by sadiexiaoyu
1
how to translate the copykat results to inferCNV i6 HMM (the six-state CNV model)
#106 opened Nov 21, 2023 by sadiexiaoyu
Could Copycat be used for zebrafish analysis?
#105 opened Nov 17, 2023 by UEATTOOMUCH260
1
running at lower resolution
#104 opened Nov 16, 2023 by vravik
Error in .External2(C_X11, paste0("jpeg::", quality, ":", filename), g$width
#103 opened Oct 4, 2023 by decodebiology
3
WARNING! NOT CONVERGENT! number of iterations= 500
#102 opened Sep 6, 2023 by mbihie
1
Adding gene annotation to CNAmatrix + p and q information
#101 opened Sep 4, 2023 by RaghadShu
1
Question regarding "GMM definition mode"
#100 opened Aug 17, 2023 by sjspielman
The results of diploid and aneuploid are reversed in test_copykat_heatmap.jpeg, why?
#99 opened Aug 11, 2023 by lj20220425
5
WARNING! NOT CONVERGENT!
#98 opened Aug 2, 2023 by stroke1989
4
Error in step4
#97 opened Jul 7, 2023 by 13021969200
Error in step 5 when trying copykat for Visium Spatial Transcriptomics data
#96 opened Jun 23, 2023 by linhuawang
ProTip! Adding no:label will show everything without a label.