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41 Open 140 Closed
41 Open 140 Closed
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Issues list

Regressing out vars.to.regress takes a very long time for samples with >10k cells
#195 opened Jun 17, 2024 by professor-sagittarius
Integration & Subset
#194 opened Jun 13, 2024 by galaxyeee
SCTransform vars.to.regress Contrasts can be applied only to factors with 2 or more levels
#193 opened May 8, 2024 by UKECat
Error running on cellbender adjusted counts
#187 opened Apr 10, 2024 by yesitsjess
5
explanation for the algorithm
#184 opened Mar 16, 2024 by BenxiaHu
Error in sort.int(x, na.last = na.last, decreasing = decreasing, ...) : 'x' must be atomic / sctransform
#180 opened Jan 25, 2024 by pstrangw
@saketkc
3
Inquiry about the batch correction model
#162 opened Apr 4, 2023 by jcho23
Why the difference in sample order affects the sctransform results
#150 opened Oct 24, 2022 by yuxuanChen777
3
Question about Reproducing a Plot in the Paper Introducing the SCTransform (Hafemeister, C., & Satija, R. #1999)
#136 opened Apr 26, 2022 by mcap91
2
batch_var doesn't work with vst.flavor = 'v2'
#126 opened Feb 10, 2022 by cnk113
2
batch_var is not corrected in sctransform::correct
#125 opened Jan 18, 2022 by dg520
Question: Is it possible to reverse the scaling done by vst()? more-information-needed
#122 opened Jan 6, 2022 by TeodoraTockovska
4
'node stack overflow' when using 'IntegrateData'!
#119 opened Dec 16, 2021 by amssljc
1
Selection of the number of cells used for the NB regression in SCTransform
#118 opened Dec 13, 2021 by BiotechPedro
Error when running SCtransform
#117 opened Nov 30, 2021 by KaWingLee9
1
sctransform batch_var error
#110 opened Sep 3, 2021 by lo2811
2
SCTransform Node Stack Overflow Error - one cause (Rfast package)
#108 opened Jun 27, 2021 by andrei-stoica26
1
When Sctransform should not be used?
#104 opened May 7, 2021 by ElyasMo
3
diff_mean_test() and group sizes
#98 opened Mar 18, 2021 by jhb1980
2
Velocyto
#96 opened Feb 22, 2021 by nasiegel88
1
Update on non-UMI data
#94 opened Feb 5, 2021 by JuliaP138
7
Error in make_cell_attr(umi, cell_attr, latent_var, batch_var, latent_var_nonreg, : cell attributes cannot contain any NA, NaN, or infinite values
#86 opened Dec 16, 2020 by connorhknight
11
SCTransform gives 'BLAS/LAPACK routine 'DLASCLS'" error
#85 opened Dec 7, 2020 by spadavec
5
Does sctransform normalisation account for changes in RNA composition?
#83 opened Nov 17, 2020 by lucygarner
1
SCTransform normalised data or regular log normalised data for assessing gene-gene correlations with pySCENIC?
#80 opened Oct 27, 2020 by lucygarner
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