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IQTREE3 error

Status: Open.

#1033 In davidemms/OrthoFinder;

· katieemelianova opened on Jul 6, 2026

How to determine an optimal MCL inflation value when no ground-truth orthogroups are available?

Status: Open.

#1032 In davidemms/OrthoFinder;

· sasupty opened on Jun 3, 2026

SCO count with DIAMOND and DIAMOND_ULTRA_SENS in OrthoFinder — interpretation and MCL inflation advice?

Status: Open.

#1031 In davidemms/OrthoFinder;

· sasupty opened on May 21, 2026

Discrepancy between BUSCO single-copy genes and OrthoFinder single-copy orthogroups in fungal comparative genomics

Status: Open.

#1030 In davidemms/OrthoFinder;

· sasupty opened on May 18, 2026

[Errno 2] No such file or directory Multisequence Alignments

Status: Open.

#1029 In davidemms/OrthoFinder;

· anearman opened on May 16, 2026

the early version of orthofinder returns errors

Status: Open.

#1028 In davidemms/OrthoFinder;

· KVin1456 opened on Apr 15, 2026

ERROR in parallel process - after finish commands of genetrees and -fgt

Status: Open.

#1027 In davidemms/OrthoFinder;

· david6git opened on Apr 10, 2026

Mismatch between Orthogroups.tsv and WorkingDirectory/Trees_ids/*.txt for a small number of OGs by OrthoFinder v3.1.3

Status: Open.

#1026 In davidemms/OrthoFinder;

· BioOmics opened on Apr 10, 2026

Question about missing Gene_Trees output in OrthoFinder v3.1.1 for downstream ASTRAL analysis

Status: Open.

#1025 In davidemms/OrthoFinder;

· Huangxiaoqin666 opened on Apr 6, 2026

ERROR: Stalled for 200.0s

Status: Open.

#1024 In davidemms/OrthoFinder;

· lfaino opened on Apr 3, 2026

BLAST results not showing

Status: Open.

#1023 In davidemms/OrthoFinder;

· QGirasek opened on Mar 11, 2026

Error code: -9

Status: Open.

#1021 In davidemms/OrthoFinder;

· BWY9394 opened on Jan 20, 2026