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Allow the user to specify multiple input files rather than just one

enhancementNew feature or requestNew feature or request

Status: Open.

#27 In rki-mf1/breakfast;

· matthuska opened on Jul 14, 2025

Ultrafast and accurate sequence alignment and clustering of viral genomes

documentationImprovements or additions to documentationImprovements or additions to documentation

Status: Open.

#21 In rki-mf1/breakfast;

· hoelzer opened on Jul 3, 2024

Do not fail when given an emtpy output file. Write header-only output file.

Status: Open.

#20 In rki-mf1/breakfast;

· matthuska opened on Sep 6, 2023

Visalize or summarize the results

Status: Open.

#18 In rki-mf1/breakfast;

· matthuska opened on Sep 26, 2022

Add option to show only sequences where the pairwise distance is below max-dist

enhancementNew feature or requestNew feature or request

Status: Open.

#12 In rki-mf1/breakfast;

· denisbeslic opened on Jun 3, 2022

Submat-batches can lead to non-stable cluster IDs

bugSomething isn't workingSomething isn't working

Status: Open.

#10 In rki-mf1/breakfast;

· denisbeslic opened on Jun 3, 2022

Additional stats about intra- and inter-cluster distance in the result file

enhancementNew feature or requestNew feature or request

Status: Open.

#3 In rki-mf1/breakfast;

· denisbeslic opened on Feb 18, 2022

Implement function to deal with overlapping Indels

enhancementNew feature or requestNew feature or request

Status: Open.

#1 In rki-mf1/breakfast;

· denisbeslic opened on Oct 27, 2021