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Enhancement: Is it possible to avoid the use of intermediate sam files?

Status: Open.

#272 In wheaton5/souporcell;

· timslittle opened on Mar 11, 2026

Input for removing souporcell genotype doublets after running demuxSNP?

Status: Open.

#271 In wheaton5/souporcell;

· denvercal1234GitHub opened on Feb 22, 2026

Duplicated common SNPs

Status: Open.

#269 In wheaton5/souporcell;

· yaniv-el opened on Feb 15, 2026

Resources required for the clustering cells by genotype step

Status: Open.

#268 In wheaton5/souporcell;

· mllrpjenne opened on Feb 4, 2026

Clarification between SoupX and souporcell for ambient RNA correction of cell-hash-tagged scRNAseq

Status: Open.

#267 In wheaton5/souporcell;

· denvercal1234GitHub opened on Jan 12, 2026

Variants that underlie genetic clusters

Status: Open.

#265 In wheaton5/souporcell;

· Sayyam-Shah opened on Dec 12, 2025

Provided Common Variants are Mostly Intergenic

Status: Open.

#264 In wheaton5/souporcell;

· DarioS opened on Nov 11, 2025

known_genotypes Implementation State Contradiction

Status: Open.

#263 In wheaton5/souporcell;

· DarioS opened on Nov 9, 2025

How to extract souporcell version for nf-core integration

Status: Open.

#262 In wheaton5/souporcell;

· LuisHeinzlmeier opened on Nov 6, 2025

souporcell3

Status: Open.

#261 In wheaton5/souporcell;

· bpuzek opened on Oct 30, 2025

Somewhat common retag error with line 24

Status: Open.

#259 In wheaton5/souporcell;

· NewtontheNeuron opened on Jul 23, 2025

shared_sample.py loss value zero

Status: Open.

#258 In wheaton5/souporcell;

· m21camby opened on Jul 10, 2025