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(Consider) switch of logging to loguru

enhancementNew feature or requestNew feature or request

priority_3

Status: Open.

#282 In naobservatory/mgs-workflow;

· katherine-stansifer opened on Apr 11, 2025

DOWNSTREAM fails if any sample has no VVs

Status: Open.

#280 In naobservatory/mgs-workflow;

· jeffkaufman opened on Apr 10, 2025

Replace or augment SE Illumina tests with SE ONT tests

enhancementNew feature or requestNew feature or request

priority_3

Status: Open.

#277 In naobservatory/mgs-workflow;

· katherine-stansifer opened on Apr 7, 2025

Ensure full test coverage for ONT workflows

enhancementNew feature or requestNew feature or request

priority_2

Status: Open.

#276 In naobservatory/mgs-workflow;

· katherine-stansifer opened on Apr 7, 2025

Make outputs of extractViralReadsShort and extractViralReadsONT more consistenat

enhancementNew feature or requestNew feature or request

priority_2

Status: Open.

#275 In naobservatory/mgs-workflow;

· katherine-stansifer opened on Apr 7, 2025

Benchmark length and quality cutoffs for filtlong (for ONT)

enhancementNew feature or requestNew feature or request

priority_3

Status: Open.

#272 In naobservatory/mgs-workflow;

· katherine-stansifer opened on Apr 4, 2025

Evaluate taxonomic classifiers/parameters for ONT data

enhancementNew feature or requestNew feature or request

priority_2

Status: Open.

#271 In naobservatory/mgs-workflow;

· katherine-stansifer opened on Apr 4, 2025

Enable poly-A trimming in ONT data

enhancementNew feature or requestNew feature or request

priority_3

Status: Open.

#269 In naobservatory/mgs-workflow;

· katherine-stansifer opened on Apr 4, 2025

New QC tool/metric for ONT data--how low complexity are our ONT reads?

enhancementNew feature or requestNew feature or request

priority_3

Status: Open.

#268 In naobservatory/mgs-workflow;

· katherine-stansifer opened on Apr 4, 2025

Improve test dataset for ONT

enhancementNew feature or requestNew feature or request

priority_2

Status: Open.

#267 In naobservatory/mgs-workflow;

· katherine-stansifer opened on Apr 4, 2025

Merge run_dev_se.nf script into run.nf (for ONT)

enhancementNew feature or requestNew feature or request

in-progressMark this label when the assignee is actively working on this item.Mark this label when the assignee is actively working on this item.

priority_1

Status: Open.

#266 In naobservatory/mgs-workflow;

· katherine-stansifer opened on Apr 4, 2025

Enhance ONT documentation

documentationImprovements or additions to documentationImprovements or additions to documentation

in-progressMark this label when the assignee is actively working on this item.Mark this label when the assignee is actively working on this item.

priority_1

Status: Open.

#265 In naobservatory/mgs-workflow;

· katherine-stansifer opened on Apr 4, 2025