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Switch <code>dada</code> inference step back to using <code>filt</code> instead of derep objects during pooled inference

Status: Open.

#72 In HPCBio/TADA;

· cjfields opened on Dec 4, 2025

Test Illumina cutadapt support for ITS and dovetailing primer pairs, strictness of primer matches

Status: Open.

#70 In HPCBio/TADA;

· cjfields opened on Nov 1, 2025

Adjust files to be compatible with Mia

Status: Open.

#69 In HPCBio/TADA;

· NeginValizadegan opened on Jun 11, 2025

Skip any QC if reads are paired-end

DSL2Prioritize for DSL2 implementationPrioritize for DSL2 implementation

Status: Open.

#68 In HPCBio/TADA;

· cjfields opened on Apr 8, 2025

Get rid of read map file

Status: Open.

#66 In HPCBio/TADA;

· cjfields opened on Apr 4, 2025

DADA script for quality plots doesn't work with all sequence file extensions

Status: Open.

#65 In HPCBio/TADA;

· cjfields opened on Mar 20, 2025

Update post-DADA2 plots for quantitative details and more direct comparison to pre-QC

DSL2Prioritize for DSL2 implementationPrioritize for DSL2 implementation

enhancementNew feature or requestNew feature or request

Status: Open.

#64 In HPCBio/TADA;

· cjfields opened on Feb 4, 2025

Allow propagation of denoising info through to merging output

DSL2Prioritize for DSL2 implementationPrioritize for DSL2 implementation

good first issueGood for newcomersGood for newcomers

Status: Open.

#63 In HPCBio/TADA;

· cjfields opened on Feb 1, 2025

Add back custom tax ranks

DSL2Prioritize for DSL2 implementationPrioritize for DSL2 implementation

good first issueGood for newcomersGood for newcomers

Status: Open.

#62 In HPCBio/TADA;

· cjfields opened on Feb 1, 2025

Add a stop step after merging + chimera detection

DSL2Prioritize for DSL2 implementationPrioritize for DSL2 implementation

Status: Open.

#61 In HPCBio/TADA;

· cjfields opened on Jan 29, 2025

Screening sequences using Infernal or HMMER

DSL2Prioritize for DSL2 implementationPrioritize for DSL2 implementation

Status: Open.

#60 In HPCBio/TADA;

· cjfields opened on Jan 26, 2025

Implement variable amplicon (ITS) subworkflow

DSL2Prioritize for DSL2 implementationPrioritize for DSL2 implementation

Status: Open.

#59 In HPCBio/TADA;

· cjfields opened on Jan 26, 2025