ssi-dk/MMASeq

View on GitHub

Package for the species specific analysis WP6 MicrobeSeq

Stars: 2
Forks: 3
Open beginner issues: 0
Indexed issues: 14
Avg merge: 13m
Merged PRs (30d): 4

Dominant language: Python
License: MIT
Last GitHub push: Sep 15, 2026
Latest indexed: Sep 19, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: No beginner labels indexed

Beginner friendly Everything

Open All

14 open issues indexed

Consider invoking nested Snakemake in-process, not through the shell Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

ssi-dk/MMASeq#231 · Opened Sep 18, 2026
MMAdeploy should support HTTP download of read files Open

Enhancement

Difficulty 3/5 1-2 days Newbie friendliness 45/100

ssi-dk/MMASeq#227 · Opened Sep 4, 2026
Ensuring long table generation by exporting the functionality outto the launcher. Open

Implementation

Difficulty 4/5 3-5 days Newbie friendliness 52/100

ssi-dk/MMASeq#226 · 1 comment · Opened Sep 4, 2026
Spades container issue Open

External

Difficulty 3/5 1-2 days Newbie friendliness 58/100

ssi-dk/MMASeq#223 · 5 comments · Opened Aug 20, 2026
Add error catcher for wrongly formatted species configs Open

Implementation

Difficulty 2/5 1-3 hours Newbie friendliness 70/100

ssi-dk/MMASeq#198 · Opened Aug 4, 2026
Plasmidfinder v2 does not work with Python v3.12 Open

External

Difficulty 4/5 3-5 days Newbie friendliness 55/100

ssi-dk/MMASeq#193 · 1 comment · Opened Jul 3, 2026
MMAdeploy --test all modules Open

Bug External Implementation

Difficulty 4/5 3-5 days Newbie friendliness 38/100

ssi-dk/MMASeq#183 · Opened Jun 29, 2026
Suggestion: Single download of all files/databases Open

Enhancement

Difficulty 5/5 Over a week Newbie friendliness 35/100

ssi-dk/MMASeq#156 · 5 comments · Opened Jun 11, 2026
Download failure in `deploy_dataset` should probably exit program Open

Bug

Difficulty 3/5 1-2 days Newbie friendliness 65/100

ssi-dk/MMASeq#135 · 3 comments · Opened May 26, 2026
Provide warnings for unknown Modules and potentially unused keywords Open

Implementation

Difficulty 4/5 3-5 days Newbie friendliness 42/100

ssi-dk/MMASeq#108 · Opened Jan 14, 2026
MLST db-dl script no longer supported Open

External Implementation

Difficulty 2/5 1-3 hours Newbie friendliness 35/100

ssi-dk/MMASeq#104 · 2 comments · Opened Dec 9, 2025
Add support MLST for E.coli and A.Baumanii (RAR) Open

Enhancement

Difficulty 5/5 Over a week Newbie friendliness 20/100

ssi-dk/MMASeq#86 · 1 comment · Opened Oct 20, 2025
Handle Module failure Open

Bug

ssi-dk/MMASeq#54 · 1 comment · 1 assignee · Opened Sep 15, 2025
Development guide Open

Documentation

Difficulty 3/5 1-2 days Newbie friendliness 35/100

ssi-dk/MMASeq#25 · Opened May 6, 2025

ssi-dk/MMASeq

Get new issues in your inbox