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dylkot
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cNMF
Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
MIT License
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Batch correction for Seurat objects
#91
danafd
opened
1 week ago
2
How to use more than 1 worker in Jupyter?
#90
christophechu
opened
1 month ago
0
An error of cnmf combine
#89
Lyu-Gaoyuan
opened
1 month ago
0
Batch correction
#88
RunyuXia
closed
1 month ago
1
Applying cNMF on semi-supervised scRNA clustering
#87
liangxs7015
opened
1 month ago
2
preprocess argument bug
#86
avishai987
closed
1 month ago
1
highly variable genes problem
#85
snow55
opened
1 month ago
1
Estimating Usage of GEP in another data set?
#84
DiegoSafian
opened
1 month ago
4
[Error] zero counts of overdispersed genes
#83
ChoiJi-Hye
closed
1 month ago
3
the sign "&" in cNMF parallelization
#82
LiuCanidk
closed
1 month ago
2
no top_genes in outputs
#81
DiegoSafian
closed
1 month ago
1
Seurat integration
#80
DiegoSafian
closed
1 month ago
1
How to adjust the convergence limit for the underlying sklearn NMF when using the command-line version of cNMF
#79
erzakiev
closed
1 month ago
4
Variance Normalization
#78
Sayyam-Shah
closed
1 month ago
1
Usage sum of each cell is over 1
#77
juneE-cloud
closed
1 month ago
3
Usages matrix is empty
#76
ccruizm
closed
1 month ago
2
Discrepancies in 'k' Output: Command Line vs. Python Environment
#75
mluciarr
opened
8 months ago
4
adata.X conversion
#74
hanhuajun40
closed
9 months ago
0
IndexError: too many indices for array: array is 1-dimensional, but 2 were indexed
#73
chenziyi
closed
6 months ago
6
How to cite cNMF?
#72
Smilenone
closed
6 months ago
1
Potential fix for issue #8, #10, #57 and #66
#71
lucas-diedrich
closed
1 month ago
2
Set stability to 0 if n_clusters == n_spectra
#70
scottgigante-immunai
closed
11 months ago
0
Cannot cast ufunc 'divide' output from dtype('float64') to dtype('int64') with casting rule 'same_kind'
#69
autumnfe79
closed
1 month ago
8
Raise error if zero components meet density threshold
#68
scottgigante-immunai
closed
11 months ago
0
Replace deprecated `sc.pp.normalize_per_cell` with `sc.pp.normalize_total`
#67
scottgigante-immunai
closed
1 month ago
1
H should have the same dtype as X. Got H.dtype = float64.
#66
ryanhchung
closed
10 months ago
2
Skip clustering if k > n_topics
#65
scottgigante-immunai
opened
1 year ago
1
Question about negative value in gep_scores matrix
#64
Tang-RH
closed
1 month ago
1
Hello. I have a question about errors related to using GNU parallel.
#63
jaewoomo
closed
1 month ago
1
Is it possible to exclude genes from the high-variance genes ?
#62
kaizen89
closed
1 month ago
1
HOW to continue cnmf-factorize?
#61
CoolCurl
opened
1 year ago
2
K_Selection_Plot Error
#60
Sayyam-Shah
closed
1 year ago
0
Difference between gene_spectra_score.k_3.dt_0_1.txt and spectra.k_3.dt_0_1.consensus.txt
#59
Li-ZhiD
closed
1 month ago
1
Top gene cutoff
#58
Sayyam-Shah
closed
6 months ago
1
cnmf consensus TypeError: H should have the same dtype as X. Got H.dtype = float64.
#57
qinting
closed
1 month ago
7
if a got a GEPs, how to calculate the usages across cells.
#56
bioworker
closed
1 month ago
3
added missing URL redirect
#55
andreped
closed
1 month ago
1
cNMF on full length scRNA-seq
#54
avishai987
closed
6 months ago
4
not found cnmf v1.4?
#53
Dragonlongzhilin
closed
1 month ago
1
How to assess the similarity between programs across samples
#52
Dragonlongzhilin
closed
1 month ago
2
applying cNMF to multiple datasets?
#51
erzakiev
closed
1 month ago
9
stability/error diagnostic plot interpretation
#50
ejc043
closed
1 year ago
0
Nan issue when linearly regressing out batch and zeroing negative values
#49
carversh
closed
6 months ago
1
IndexError: too many indices for array: array is 1-dimensional, but 2 were indexed
#48
AteeqMKhaliq
closed
1 month ago
7
TPM Flag
#47
carversh
closed
1 year ago
4
cnmf 1.4 is not on pip
#46
Jon-bioinfo
closed
1 year ago
2
Running cNMF for multiple batches?
#45
mdmanurung
closed
1 year ago
3
Log Transformation
#44
Sayyam-Shah
closed
1 year ago
2
adding multiprocess option from python native multiprocess module
#43
rLannes
closed
1 year ago
2
multi-proccessing from script?
#42
rLannes
closed
1 month ago
3
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