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Comparison samples prok-mainly vs mixed prok/euk

Status: Open.

#1020 In jtamames/SqueezeMeta;

· HannahBenisty opened on Mar 4, 2026

Alternative SubsetFun

Status: Open.

#1019 In jtamames/SqueezeMeta;

· JackDettoLoco opened on Mar 4, 2026

Stopping TAXONOMIC ASSIGNMENT: 06.lca.pl

Status: Open.

#1018 In jtamames/SqueezeMeta;

· Mandeepumra opened on Feb 24, 2026

Unknown option: force_overwrite for sqm_reads.pl

enhancementNew feature or requestNew feature or request

SQM_reads

Status: Open.

#1015 In jtamames/SqueezeMeta;

· SimonChen1997 opened on Jan 22, 2026

Error in 12th step

Status: Open.

#1011 In jtamames/SqueezeMeta;

· Pmishraa opened on Nov 26, 2025

SqueezeMeta 1.65post1 gives checkM errors and reinstall can't connect to host

Status: Open.

#1002 In jtamames/SqueezeMeta;

· dutchscientist opened on Sep 19, 2025

sqmreads2tables.py AssertionError

bugSomething isn't workingSomething isn't working

sqm_longreads

Status: Open.

#990 In jtamames/SqueezeMeta;

· CarlosNavr opened on Jul 4, 2025

Add a --notax flag to SqueezeMeta, sqm_reads and sqm_longreads

enhancementNew feature or requestNew feature or request

Status: Open.

#966 In jtamames/SqueezeMeta;

· fpusan opened on Apr 7, 2025

Feature Request: Gene Clustering for Non-Redundant Gene Catalog

Status: Open.

#919 In jtamames/SqueezeMeta;

· fconstancias opened on Jan 8, 2025

sqm_mapper: reuse mapped reference genome possible?

Status: Open.

#905 In jtamames/SqueezeMeta;

· dutchscientist opened on Nov 15, 2024

Workflow, tool version outline

enhancementNew feature or requestNew feature or request

Status: Open.

#825 In jtamames/SqueezeMeta;

· s-junguy opened on Apr 11, 2024

"zip file is corrupt" when loading a zipped project into SQMtools

bugSomething isn't workingSomething isn't working

SQMtools

Status: Open.

#755 In jtamames/SqueezeMeta;

· fpusan opened on Nov 19, 2023