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Support for on-disk formats like BPCells

Status: Open.

#207 In satijalab/sctransform;

· siddharthab opened on Aug 8, 2025

Error in tcrossprod(model_pars_final[genes_bin, -1, drop = FALSE], regressor_data_final) : "tcrossprod" is not a BUILTIN function

Status: Open.

#206 In satijalab/sctransform;

· Counts-Xin opened on May 12, 2025

Error in make_cell_attr(umi, cell_attr, latent_var, batch_var, latent_var_nonreg, : cell attribute "log_umi" contains NA, NaN, or infinite value

Status: Open.

#204 In satijalab/sctransform;

· Jingyi-only opened on Dec 29, 2024

Concern regarding method use for Xenium data

Status: Open.

#203 In satijalab/sctransform;

· LPotter21 opened on Dec 11, 2024

Error: cannot allocate vector of size 80.7 Gb

Status: Open.

#202 In satijalab/sctransform;

· mylenaortiz opened on Nov 26, 2024

Error: make_cell_attr - log_umi contains NA, NaN, or infinite value in SCTransform

Status: Open.

#200 In satijalab/sctransform;

· unikill066 opened on Nov 6, 2024

Regressing out vars.to.regress takes a very long time for samples with >10k cells

Status: Open.

#195 In satijalab/sctransform;

· professor-sagittarius opened on Jun 17, 2024

Integration & Subset

Status: Open.

#194 In satijalab/sctransform;

· galaxyeee opened on Jun 13, 2024

SCTransform vars.to.regress Contrasts can be applied only to factors with 2 or more levels

Status: Open.

#193 In satijalab/sctransform;

· UKECat opened on May 8, 2024

Error running on cellbender adjusted counts

Status: Open.

#187 In satijalab/sctransform;

· yesitsjess opened on Apr 10, 2024

explanation for the algorithm

Status: Open.

#184 In satijalab/sctransform;

· BenxiaHu opened on Mar 16, 2024

Error in sort.int(x, na.last = na.last, decreasing = decreasing, ...) : 'x' must be atomic / sctransform

Status: Open.

#180 In satijalab/sctransform;

· pstrangw opened on Jan 25, 2024