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Support for snpAD

enhancementNew feature or requestNew feature or request

feature

Status: Closed (completed).

#29 In nf-core/eager;

· by apeltzer was closed on Jun 8, 2020

Advanced FileNaming

Status: Closed (completed).

#179 In nf-core/eager;

· by apeltzer was closed on Oct 16, 2019

VariantCalling / PseudoCalling Parallelization

Status: Closed (completed).

#31 In nf-core/eager;

· by apeltzer was closed on Jun 23, 2020

Add bcftools stats module

easier-tasks

enhancementNew feature or requestNew feature or request

good first issueGood for newcomersGood for newcomers

pendingAddressed on branch waiting for related PRAddressed on branch waiting for related PR

Status: Closed (completed).

#317 In nf-core/eager;

· by jfy133 was closed on Aug 25, 2021

Investigate applicability of sequence variation graphs

feature

Status: Closed (completed).

#243 In nf-core/eager;

· by apeltzer was closed on Sep 25, 2020

Consider adding nonpariel - 'preseq for metagenomic taxonomic profiling'

questionFurther information is requestedFurther information is requested

Status: Closed (completed).

#335 In nf-core/eager;

· by jfy133 was closed on Apr 25, 2021

PMDTools Error

bugSomething isn't workingSomething isn't working

needs upstream fixNeeds a fix in the upstream tool projectNeeds a fix in the upstream tool project

Status: Closed (completed).

#324 In nf-core/eager;

· by jfy133 was closed on May 14, 2021

Add gatk3 jar to container

enhancementNew feature or requestNew feature or request

Status: Closed (completed).

#602 In nf-core/eager;

· by jfy133 was closed on Nov 18, 2020

Lane column can be removed from downstream processes after lanemerge

enhancementNew feature or requestNew feature or request

minor

Status: Closed (completed).

#579 In nf-core/eager;

· by jfy133 was closed on Jul 18, 2021

Add ability to remove internal barcodes

enhancementNew feature or requestNew feature or request

pendingAddressed on branch waiting for related PRAddressed on branch waiting for related PR

questionFurther information is requestedFurther information is requested

Status: Closed (completed).

#632 In nf-core/eager;

· by jfy133 was closed on Aug 23, 2021

Allow multiple sets of adapters to be supplied

enhancementNew feature or requestNew feature or request

feature

good first issueGood for newcomersGood for newcomers

minor

pendingAddressed on branch waiting for related PRAddressed on branch waiting for related PR

Status: Closed (completed).

#651 In nf-core/eager;

· by ashildv was closed on Aug 19, 2021

Make a standalone TSV input validation script

enhancementNew feature or requestNew feature or request

Status: Closed (completed).

#581 In nf-core/eager;

· by jfy133 was closed on May 20, 2021

Add fastq trimming functionality

enhancementNew feature or requestNew feature or request

pendingAddressed on branch waiting for related PRAddressed on branch waiting for related PR

Status: Closed (completed).

#431 In nf-core/eager;

· by aidaanva was closed on Aug 23, 2021

Re-add AdapterRemovalFixPrefix once conda build updated/fixed

bugSomething isn't workingSomething isn't working

enhancementNew feature or requestNew feature or request

Status: Closed (completed).

#587 In nf-core/eager;

· by jfy133 was closed on Nov 10, 2020

Default values for bamUtil trimming

enhancementNew feature or requestNew feature or request

questionFurther information is requestedFurther information is requested

Status: Closed (completed).

#612 In nf-core/eager;

· by scarlhoff was closed on Aug 25, 2021

Merging of ssDNA and dsDNA genotypes.

enhancementNew feature or requestNew feature or request

feature

pendingAddressed on branch waiting for related PRAddressed on branch waiting for related PR

Status: Closed (completed).

#481 In nf-core/eager;

· by TCLamnidis was closed on Jul 16, 2020

Update latest 'best practise' aDNA mapping parameters

enhancementNew feature or requestNew feature or request

partially-fixed

pendingAddressed on branch waiting for related PRAddressed on branch waiting for related PR

Status: Closed (completed).

#722 In nf-core/eager;

· by jfy133 was closed on Aug 25, 2021

Addition of preseq's lc_extrap function

enhancementNew feature or requestNew feature or request

Status: Closed (completed).

#769 In nf-core/eager;

· by roberta-davidson was closed on Aug 19, 2021

Pmdtools addparams

enhancementNew feature or requestNew feature or request

needs upstream fixNeeds a fix in the upstream tool projectNeeds a fix in the upstream tool project

WIPWork in progressWork in progress

Status: Closed (abandoned).

nf-core/eagernumber 353

#353 In nf-core/eager;

· by jfy133 was closed on Oct 20, 2020