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Nextflow 26+ fails to parse main_AMR++.nf

Status: Open.

#58 In Microbial-Ecology-Group/AMRplusplus;

· Swindle98 opened on Jun 29, 2026

Script compilation failed

Status: Open.

#57 In Microbial-Ecology-Group/AMRplusplus;

· Veroman opened on May 25, 2026

Failing to Run AMR++ for Resistome Analysis Due to Kraken Error?

Status: Open.

#53 In Microbial-Ecology-Group/AMRplusplus;

· brt-78-jpg opened on Oct 27, 2025

Data copy bug when using deduplication.

Status: Open.

#50 In Microbial-Ecology-Group/AMRplusplus;

· desiro opened on May 2, 2025

Silent bug in host removal functions

Status: Open.

#48 In Microbial-Ecology-Group/AMRplusplus;

· patriciatran opened on Nov 20, 2024

MicrobiomeAnalysis directory empty in standard_AMR_wKraken pipeline

Status: Open.

#47 In Microbial-Ecology-Group/AMRplusplus;

· tgaire opened on Nov 15, 2024

SNP verification module

Status: Open.

#45 In Microbial-Ecology-Group/AMRplusplus;

· Jingle-H opened on Sep 11, 2024

Can I run AMR++ on fasta files only?

Status: Open.

#44 In Microbial-Ecology-Group/AMRplusplus;

· rbtoscan opened on Aug 28, 2024

Error in runqc in standard_AMR pipeline

Status: Open.

#43 In Microbial-Ecology-Group/AMRplusplus;

· pratibha-kadam opened on Aug 21, 2024

Way to extract reads or read IDs related to the SNPconfirmed_deduped genes?

Status: Open.

#42 In Microbial-Ecology-Group/AMRplusplus;

· anw-sh opened on Aug 1, 2024

Analyzing Multiple Files Simultaneously with AMR++

Status: Open.

#40 In Microbial-Ecology-Group/AMRplusplus;

· FarzanehRah opened on Jul 28, 2024

Hits - How do you count?

Status: Open.

#39 In Microbial-Ecology-Group/AMRplusplus;

· ulrichmarkus opened on Jul 18, 2024