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Add Chai-1

Status: Open.

Enhancement

#250 In nf-core/proteinfold;

· jscgh opened on Feb 28, 2025

Update colabfold_batch subworkflow

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#224 In nf-core/proteinfold;

· luisas opened on Nov 21, 2024

Add checksums validation for DBs files

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#107 In nf-core/proteinfold;

· JoseEspinosa opened on Jun 15, 2023

colabfold_local mode does not work offline

bugSomething isn't workingSomething isn't working

Status: Open.

#209 In nf-core/proteinfold;

· JoseEspinosa opened on Oct 29, 2024

Add Omegafold workflow

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#32 In nf-core/proteinfold;

· kenibrewer opened on Sep 26, 2022

Add download of Foldseek DBs

enhancementImprovement for existing functionalityImprovement for existing functionality

feature-requestRequest for a new pipeline featureRequest for a new pipeline feature

Status: Open.

Enhancement

#288 In nf-core/proteinfold;

· JoseEspinosa opened on Apr 9, 2025

Adding interaction screening feature

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#258 In nf-core/proteinfold;

· ziadbkh opened on Mar 24, 2025

Create a process for extract_metrics.py

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#309 In nf-core/proteinfold;

· JoseEspinosa opened on May 19, 2025

Support *.cif.gz or *.gz files detection for all DBs in AF2 pipeline

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#279 In nf-core/proteinfold;

· MauriAndresMU1313 opened on Mar 27, 2025

Should the downloading subworkflow become a separate workflow?

enhancementImprovement for existing functionalityImprovement for existing functionality

questionFurther information is requestedFurther information is requested

Status: Open.

#203 In nf-core/proteinfold;

· JoseEspinosa opened on Oct 25, 2024

Interactive PAE viewer in HTML report

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#341 In nf-core/proteinfold;

· tlitfin-unsw opened on Jul 9, 2025

colabfold_batch to use raw metrics extraction

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

Enhancement

#313 In nf-core/proteinfold;

· keiran-rowell-unsw opened on May 21, 2025

Expand fasta_to_alphafold3_json.py to support multifasta multimers

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

Bug

#325 In nf-core/proteinfold;

· keiran-rowell-unsw opened on Jun 10, 2025

nextflow_schema.json is not working on seqera platform

bugSomething isn't workingSomething isn't working

Status: Open.

#206 In nf-core/proteinfold;

· ziadbkh opened on Oct 26, 2024

Add OpenFold workflow

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#98 In nf-core/proteinfold;

· athbaltzis opened on May 17, 2023

Integrate Jalview for the visualisation of AlphaFold2 and Colabfold results

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#86 In nf-core/proteinfold;

· athbaltzis opened on Mar 26, 2023

Automatically detect multimer and monomer mode

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#344 In nf-core/proteinfold;

· tlitfin-unsw opened on Jul 12, 2025

Improved support for non-protein entities

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#353 In nf-core/proteinfold;

· tlitfin-unsw opened on Aug 3, 2025

Extend pTM/iPTM data in report, e.g. region-specific selection

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#308 In nf-core/proteinfold;

· keiran-rowell-unsw opened on May 19, 2025

nf-tests do not capture versions from container contents

bugSomething isn't workingSomething isn't working

Status: Open.

Bug

#365 In nf-core/proteinfold;

· jscgh opened on Aug 6, 2025

MMSeqs GPU

Status: Draft (not ready).

nf-core/proteinfoldnumber 337

#337 In nf-core/proteinfold;

· nbtm-sh opened on Jul 7, 2025

Change to named instead of positional arguments in channel mixing

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

Bug

#373 In nf-core/proteinfold;

· keiran-rowell-unsw opened on Aug 13, 2025

MSA coverage plot in HTML report, for every module

bugSomething isn't workingSomething isn't working

Status: Open.

Bug

#363 In nf-core/proteinfold;

· keiran-rowell-unsw opened on Aug 6, 2025

Minimal value dummy tsv for each metric until GENERATE_REPORT is refactored

bugSomething isn't workingSomething isn't working

Status: Open.

Enhancement

#375 In nf-core/proteinfold;

· keiran-rowell-unsw opened on Aug 20, 2025

Switch from stub run tests to use small DBs

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#400 In nf-core/proteinfold;

· JoseEspinosa opened on Oct 14, 2025