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DSL2 Planning

DSL2

enhancementNew feature or requestNew feature or request

Status: Open.

#778 In nf-core/eager;

· jfy133 opened on Jul 14, 2021

DSL2: Sex determination output sometimes listed on Sample, sometimes on library level

bugSomething isn't workingSomething isn't working

DSL2

Status: Open.

#837 In nf-core/eager;

· stschiff opened on Mar 4, 2022

Dev notes: eager3 don't forget list

DSL2

Status: Open.

#918 In nf-core/eager;

· jfy133 opened on Sep 11, 2022

DSL2: stats

DSL2

enhancementNew feature or requestNew feature or request

Status: Open.

#922 In nf-core/eager;

· jfy133 opened on Oct 7, 2022

DSL2: pop-gen

DSL2

enhancementNew feature or requestNew feature or request

Status: Open.

#924 In nf-core/eager;

· jfy133 opened on Oct 7, 2022

DSL2: Document loudly that -params-files should replace custom.config for parameters

DSL2

enhancementNew feature or requestNew feature or request

Status: Open.

#943 In nf-core/eager;

· jfy133 opened on Jan 25, 2023

Possiblity to extract non-host paired-end reads in separate FastQ files

DSL2

enhancementNew feature or requestNew feature or request

Status: Open.

#945 In nf-core/eager;

· alexhbnr opened on Feb 22, 2023

DSL2: Add test profile that forces ALL the possible merging steps for FastQ and BAM inputs, to ensure no file name collisions happen.

DSL2

Status: Open.

#986 In nf-core/eager;

· TCLamnidis opened on May 25, 2023

Consider AuthentiCT

DSL2

enhancementNew feature or requestNew feature or request

Status: Open.

#371 In nf-core/eager;

· apeltzer opened on Mar 16, 2020

Remove linebreaks in markdown docs to reduce diff size

DSL2

low_priorityLow priority taskLow priority task

Status: Open.

#617 In nf-core/eager;

· jfy133 opened on Nov 30, 2020

DSL2: Print Nuclear Contamination JSON <code>N/A</code> value

bugSomething isn't workingSomething isn't working

DSL2

Status: Open.

#995 In nf-core/eager;

· TCLamnidis opened on Jun 7, 2023

Fix description of mt/n ratio in docs

documentation

DSL1

DSL2

Status: Open.

#1055 In nf-core/eager;

· TCLamnidis opened on Feb 28, 2024

DSL2: Ensure modules config consistency: all modules have an <code>ext.prefix</code> and <code>publishDir</code> attribute, and follow conventions.

DSL2

Status: Open.

#1066 In nf-core/eager;

· TCLamnidis opened on Apr 26, 2024

DSL2 remove or change bamfiltering_genomicbamfilterflag

bugSomething isn't workingSomething isn't working

DSL2

Status: Open.

#1130 In nf-core/eager;

· merszym opened on Apr 11, 2025

DSL2 - Host-removal keeps adapters in [DISCUSSION?]

DSL2

Status: Open.

#1131 In nf-core/eager;

· merszym opened on Apr 11, 2025

DSL2: Switch to <code>main</code> branch

easier-tasks

major

Status: Open.

#1157 In nf-core/eager;

· TCLamnidis opened on Aug 22, 2025