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hemberg-lab
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SC3
A tool for the unsupervised clustering of cells from single cell RNA-Seq experiments
http://bioconductor.org/packages/SC3
GNU General Public License v3.0
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Question about <NA> labels from cell clustering via SC3
#111
yxy92
closed
7 months ago
1
sc3_run_svm has a prediction issue
#110
jmuribes
closed
1 year ago
2
Running SC3 in integrated data
#109
anemartinezlarrinaga2898
closed
1 year ago
1
could not find function "calculate_distance"
#108
irtisha
opened
1 year ago
2
long vectors are not supported in .C
#107
zhangtongda
closed
2 years ago
1
Saving SC3 clustering output as csv files
#106
bsamal20
closed
2 years ago
3
saving SC3 output
#105
bsamal20
opened
2 years ago
0
rewritten parallelism to BiocParallel package
#104
gorgitko
opened
3 years ago
6
one node produced an error: Error in ED2(data)
#103
eshraaqsaeed
opened
3 years ago
1
The Perl script 'WriteXLS.pl' failed to run successfully.
#102
UnkownNames
opened
3 years ago
0
Error in rowSums(out_pathway) : 'x' must be an array of at least two dimensions
#101
zina-R
closed
3 years ago
1
sc3_kmeans produces "Warning message: Quick-TRANSfer stage steps exceeded maximum (= 250000)"
#100
MikeHala
closed
3 years ago
1
Which remove-batch-effect package work best with SC3?
#99
kuang-da
closed
4 years ago
1
Sparse matrix causes errors
#98
RebekkaWegmann
closed
4 years ago
2
Error in prcomp.default
#97
dsimps1993
closed
4 years ago
4
each element of 'reducedDims' must be a matrix-like object with nrow equal to 'ncol(object)
#96
makimenkova
opened
5 years ago
1
Gene names lost after get_marker_genes()
#95
friedue
opened
5 years ago
0
Plot expression on given list of genes
#94
shabs24
closed
5 years ago
1
Clustering for more than 10000 Genes
#93
hkarakurt8742
closed
5 years ago
3
SC3 with Batch Correction
#92
hkarakurt8742
closed
5 years ago
1
How to calculate D?
#91
XiHuYan
closed
5 years ago
4
Copy transformations to @reducedDims when possible
#90
nh3
closed
5 years ago
0
Fixed the sparse matrix issue
#89
zhangguy
opened
5 years ago
1
error running sc3_plot_de_genes
#88
qiaowei-vvjoe
opened
5 years ago
8
No gene names in export results
#87
dsimps1993
opened
5 years ago
4
SC3 error on linux server: Not compatible with requested type
#86
LuyiTian
closed
5 years ago
5
Which data type for clustering
#85
mkrzak
closed
5 years ago
2
sc3_plot_de_genes and sc3_plot_markers problems
#84
Santos22903
closed
5 years ago
2
Consider using Forks for parallelism?
#83
Shians
closed
3 years ago
3
is it possible to surpress the message in `sc3` function.
#82
LuyiTian
opened
5 years ago
1
#UMI counts table
#81
penglbio
closed
5 years ago
1
Small suggestion for sc3_prepare() documentation
#80
PeteHaitch
opened
5 years ago
1
Plot column names
#79
simone-rizzetto
opened
5 years ago
1
Specify custom genes/features
#78
royfrancis
closed
5 years ago
1
Clusters for max 5000 cells
#77
julien-roux
closed
6 years ago
2
SC3 repeatedly loads packages while running and has data display issues
#76
jamesrhowe
closed
5 years ago
3
Not clear how SC3 exactly works
#75
CodeInTheSkies
closed
5 years ago
5
Error in checkForRemoteErrors(val) : 3 nodes produced errors; first error: Error in ED2(data) : Not compatible with requested type: [type=S4; target=double].
#74
JesusCorria
closed
6 years ago
2
Error in `[.default`(clusts, , paste0("sc3_", hash.table[i, 1], "_clusters"))
#73
DrLucyMac
opened
6 years ago
10
Error in checkForRemoteErrors(val) :
#72
15084921898
closed
5 years ago
2
Excluding principal components from clustering
#71
martabrozynska
closed
5 years ago
2
Annotation colour palette in heatmaps
#70
wikiselev
opened
6 years ago
0
Pass k_estimate results if ks is NULL; fixes #67
#69
pati-ni
closed
6 years ago
0
Large number of NA's when run on large dataset.
#68
TChan92
closed
5 years ago
17
k_estimator output not passed to sc3 wrapper function
#67
leonfodoulian
closed
6 years ago
1
Feature request: option to specify assay used
#66
dkoppstein
closed
5 years ago
5
show_pdata errors in sc3_plot_expression(), sc3_plot_de_genes(), sc3_plot_markers(), but not sc3_plot_consensus()
#65
KeelyDulmage
closed
5 years ago
4
Error in ED2(data)
#64
biosyssun
closed
5 years ago
3
default for `n_cores`
#63
stephaniehicks
closed
6 years ago
1
export plot from SC3
#62
MichaelPeibo
closed
6 years ago
2
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