satijalab/sctransform issues and pull requests

#98 - diff_mean_test() and group sizes

Issue - State: open - Opened by jhb1980 almost 4 years ago - 2 comments

#97 - vst and batch_var correction does not work

Issue - State: closed - Opened by FelixErnst almost 4 years ago - 1 comment

#96 - Velocyto

Issue - State: open - Opened by nasiegel88 almost 4 years ago - 1 comment

#95 - Can I use the value processed by SCTransform to calcuate variance of genes in one cell?

Issue - State: closed - Opened by duocang about 4 years ago - 5 comments

#94 - Update on non-UMI data

Issue - State: open - Opened by JuliaP138 about 4 years ago - 7 comments

#93 - Why SCTransform converts the gene expression levels to integers or some categorized values?

Issue - State: closed - Opened by ElyasMo about 4 years ago - 1 comment

#92 - problem with regressing out rbc genes, not all variables found in seurat object meta data?

Issue - State: closed - Opened by jessicook about 4 years ago - 3 comments

#91 - arguments imply differing number of rows

Issue - State: closed - Opened by Biomiha about 4 years ago - 6 comments

#90 - Question about using residuals for integration & DE analysis

Issue - State: closed - Opened by jgamache014 about 4 years ago - 2 comments

#89 - fixed batch variable or latent variable attribute checking

Pull Request - State: closed - Opened by kmwinkley about 4 years ago - 1 comment

#88 - SCTransform error when using batch or other latent variables

Issue - State: closed - Opened by kmwinkley about 4 years ago - 1 comment

#87 - sctransform: Error: node stack overflow

Issue - State: closed - Opened by duocang about 4 years ago - 5 comments

#86 - 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

Issue - State: open - Opened by connorhknight about 4 years ago - 11 comments

#85 - SCTransform gives 'BLAS/LAPACK routine 'DLASCLS'" error

Issue - State: open - Opened by spadavec about 4 years ago - 5 comments

#84 - lazy-load database '/home/yanxing/R/x86_64-pc-linux-gnu-library/4.0/sctransform/R/sctransform.rdb' is corrupt

Issue - State: closed - Opened by chenyx47 about 4 years ago - 1 comment

#83 - Does sctransform normalisation account for changes in RNA composition?

Issue - State: open - Opened by lucygarner over 4 years ago - 1 comment

#82 - reached iteration limit

Issue - State: closed - Opened by Pinpin-u1111 over 4 years ago - 4 comments

#81 - Error in h(simpleError(msg, call)) when I was running SCTransform

Issue - State: closed - Opened by HuaZou over 4 years ago - 1 comment

#80 - SCTransform normalised data or regular log normalised data for assessing gene-gene correlations with pySCENIC?

Issue - State: open - Opened by lucygarner over 4 years ago

#79 - About pbmc33k_identities.rds in paper

Issue - State: open - Opened by kuang-da over 4 years ago

#78 - Construction of model and regularization when batch_var is used

Issue - State: open - Opened by HillJamie over 4 years ago

#77 - How to specify genes for normalization?

Issue - State: open - Opened by huoqiang138 over 4 years ago - 3 comments

#76 - Error in while ((it <- it + 1) < limit && abs(del) > eps) { : missing value where TRUE/FALSE needed

Issue - State: closed - Opened by nasjr08 over 4 years ago - 8 comments

#75 - intermittent errors in SCTransform

Issue - State: closed - Opened by kmwinkley over 4 years ago - 2 comments

#74 - No residual_variance with GlmGamPoi when using batch_var

Issue - State: closed - Opened by ATpoint over 4 years ago - 4 comments

#73 - error from signalConditions

Issue - State: closed - Opened by jliu678 over 4 years ago - 3 comments

#72 - Issue when trying to upload shiny app

Issue - State: closed - Opened by MarcElosua over 4 years ago - 2 comments

#71 - "missing value where TRUE/FALSE needed" error occurring with certain seeds (for nb_fast and poisson both with theta.ml)

Issue - State: closed - Opened by diegoalexespi over 4 years ago - 5 comments

#70 - Difference between vst_out$y and get_residuals()

Issue - State: closed - Opened by frederikziebell over 4 years ago - 2 comments

#69 - Error in get_residuals(), 'log_umi' not found

Issue - State: open - Opened by frederikziebell over 4 years ago - 1 comment

#68 - Consistency across computers/environments

Issue - State: open - Opened by Baboon61 over 4 years ago - 3 comments

#65 - Error in while ((it <- it + 1) < limit && abs(del) > eps) { : missing value where TRUE/FALSE needed

Issue - State: closed - Opened by morganee261 over 4 years ago - 10 comments

#63 - Disk-based data

Issue - State: open - Opened by willtownes over 4 years ago - 4 comments

#35 - applying to non-UMI data - update?

Issue - State: closed - Opened by AnnaLaddach over 5 years ago - 4 comments

Ecosyste.ms: Issues

GitHub / satijalab/sctransform issues and pull requests