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Missing data on server for Wombat in Quant DDA peptidoform module

Status: Open.

#936 In Proteobench/ProteoBench;

· wolski opened on Dec 13, 2025

Notebooks in jupyter notebooks, not being tested, folder structure

Status: Open.

#935 In Proteobench/ProteoBench;

· wolski opened on Dec 12, 2025

add link to biorXiv in the documentation

Status: Open.

#933 In Proteobench/ProteoBench;

· mlocardpaulet opened on Dec 12, 2025

User specified label for use in plots after "Submit New Data"

Status: Open.

#930 In Proteobench/ProteoBench;

· fabianegli opened on Dec 1, 2025

Improve AlphaDIA multi-file upload description

Status: Open.

#929 In Proteobench/ProteoBench;

· rodvrees opened on Dec 1, 2025

Explore whether we can use AlphaDIA's frozen_config as parameter file, instead of log

Status: Open.

#926 In Proteobench/ProteoBench;

· rodvrees opened on Nov 28, 2025

Have automatic resubmission of datapoints

server-side

Status: Open.

#925 In Proteobench/ProteoBench;

· rodvrees opened on Nov 28, 2025

Add species-weighted metrics for HYE quant modules so that quant accuracy metric is not dominated by most abundant human precursors

code related

enhancementNew feature or requestNew feature or request

Status: Open.

#924 In Proteobench/ProteoBench;

· rodvrees opened on Nov 28, 2025

PXD062685

Status: Open.

#920 In Proteobench/ProteoBench;

· wenbostar opened on Nov 24, 2025

highlight open source software in current modules

Status: Open.

#918 In Proteobench/ProteoBench;

· mlocardpaulet opened on Nov 21, 2025

Point clutter

Status: Open.

#916 In Proteobench/ProteoBench;

· RobbinBouwmeester opened on Nov 20, 2025

Accessibility for colorblindness

Status: Open.

#915 In Proteobench/ProteoBench;

· rodvrees opened on Nov 12, 2025