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correctly using "--keep-read-assignments" generated files

Status: Open.

#125 In treangenlab/emu;

· AlexandreThibodeauUdM opened on Jul 28, 2026

Can I have the Emu Image emu.sif file?

Status: Open.

#122 In treangenlab/emu;

· zpingfeng opened on May 25, 2026

Can I get a FASTA file containing the mapped reads?

Status: Open.

#121 In treangenlab/emu;

· 31ulna opened on May 7, 2026

Results for samples with "0 reads mapped"

enhancementNew feature or requestNew feature or request

Status: Open.

#120 In treangenlab/emu;

· ikarls opened on May 7, 2026

Feature: Ability to take a pre-created bam file in abundance estimation

enhancementNew feature or requestNew feature or request

Status: Open.

#112 In treangenlab/emu;

· samuell opened on Feb 17, 2026

Feature: TSV-reports sorted by abundance

enhancementNew feature or requestNew feature or request

Status: Open.

#107 In treangenlab/emu;

· samuell opened on Feb 9, 2026

Emu calls likely fungal mitochondrial sequence as Orientia tsutsugamushi with the default database

Status: Open.

#103 In treangenlab/emu;

· KatSteinke opened on Jan 8, 2026

Bacterial Functional Annotation using EMU Output

Status: Open.

#84 In treangenlab/emu;

· Anon1382 opened on Aug 8, 2025

No Proteobacteria reads in human stool sample by emu

Status: Open.

#79 In treangenlab/emu;

· jyo-12345 opened on Jul 21, 2025

incorrect hits with bad alignment still gives "1.0" read assignment probability

Status: Open.

#74 In treangenlab/emu;

· Robvh-git opened on Jun 4, 2025

How are novel species annotated?

enhancementNew feature or requestNew feature or request

Status: Open.

#21 In treangenlab/emu;

· ashleyp1 opened on Sep 6, 2024