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Pipeline fails at MULTIQC and BCFTOOLS_MERGE__DELLY steps

Status: Open.

#255 In TORCH-Consortium/MAGMA;

· Leobpfbac opened on Mar 27, 2026

Consider the addition of TBtypeR subworkflow to facilitate mixed-infection analysis

enhancementNew feature or requestNew feature or request

Status: Open.

#253 In TORCH-Consortium/MAGMA;

· abhi18av opened on Dec 3, 2025

Simplify the process of updating and using tb-profiler latest/custom tbdb version

Status: Open.

#246 In TORCH-Consortium/MAGMA;

· abhi18av opened on Sep 4, 2025

Publish a modified multi-sample VCF suitable for Nextstrain builds

Status: Open.

#244 In TORCH-Consortium/MAGMA;

· abhi18av opened on Jul 17, 2025

·  

v2.2.3

Consider inclusion of optional fastp in the QC subworkflow

Status: Open.

#238 In TORCH-Consortium/MAGMA;

· abhi18av opened on May 15, 2025

Reconsider the default k-mer length

Status: Open.

#237 In TORCH-Consortium/MAGMA;

· abhi18av opened on May 9, 2025

MINOR_VARIANTS_ANALYSIS_WF:TBPROFILER_VCF_PROFILE__LOFREQ error on conda config

Status: Open.

#207 In TORCH-Consortium/MAGMA;

· Mxrcon opened on Jul 11, 2024

Transition to nf-core standard for pipeline and documentation

Status: Open.

#188 In TORCH-Consortium/MAGMA;

· abhi18av opened on Mar 18, 2024

Standardisation of MGIT-sputum-culture pairs

enhancementNew feature or requestNew feature or request

Status: Open.

#166 In TORCH-Consortium/MAGMA;

· vrennie opened on Aug 9, 2023

Speeding up minor variants analysis

enhancementNew feature or requestNew feature or request

Status: Open.

#165 In TORCH-Consortium/MAGMA;

· vrennie opened on Aug 9, 2023

Add info about the sequencing tech TAG and reflect that on the reports

enhancementNew feature or requestNew feature or request

Status: Open.

#150 In TORCH-Consortium/MAGMA;

· abhi18av opened on Apr 4, 2023

Remove old fastq.STATUS.tsv files

Status: Open.

#144 In TORCH-Consortium/MAGMA;

· LennertVerboven opened on Feb 20, 2023