steineggerlab/Metabuli

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Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.

Stars: 186
Forks: 17
Open beginner issues: 3
Indexed issues: 40

Dominant language: C++
License: GPL-3.0
Last GitHub push: Sep 9, 2026
Latest indexed: Sep 20, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: No beginner labels indexed
PR merge metrics: No merged PRs in 30d

Beginner friendly Everything

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40 open issues indexed

Database download is broken Open

Difficulty 3/5 1-2 days Newbie friendliness 52/100

steineggerlab/Metabuli#195 · 2 comments · Opened Jul 22, 2026
Trailing tab in unclassified classification rows breaks TSV parsing Open

Difficulty 1/5 Under an hour Newbie friendliness 82/100

steineggerlab/Metabuli#194 · 1 comment · 1 reaction · Opened Jul 22, 2026
The issue of inconsistency between species and taxid in *_report.csv Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

steineggerlab/Metabuli#193 · Opened Jul 15, 2026
I want to put Metabuli on an online website, can you give me some suggestions? Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

steineggerlab/Metabuli#192 · 7 comments · Opened Jul 6, 2026
link show err 404 - New GTDB R226 database Open

Difficulty 3/5 1-2 days Newbie friendliness 38/100

steineggerlab/Metabuli#190 · 1 comment · Opened Jun 21, 2026
[QUESTION] Extract reads that do not match a specific taxid Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

steineggerlab/Metabuli#189 · 1 comment · Opened Jun 11, 2026
User provided CDS info Open

Difficulty 3/5 1-2 days Newbie friendliness 48/100

steineggerlab/Metabuli#186 · 2 comments · Opened Apr 30, 2026
Resource not found while downloading Open

Difficulty 2/5 1-3 hours Newbie friendliness 68/100

steineggerlab/Metabuli#185 · 4 comments · Opened Apr 14, 2026
metabuli classifiedRefiner issues Open

Difficulty 3/5 1-2 days Newbie friendliness 52/100

steineggerlab/Metabuli#177 · 12 comments · Opened Mar 6, 2026
Linker error: undefined reference to fastq_validate_entry when building Metabuli Open

Difficulty 2/5 1-3 hours Newbie friendliness 68/100

steineggerlab/Metabuli#176 · 1 comment · Opened Mar 3, 2026
Prebuilt databases do not have nodes.dmp for the use of classifiedRefiner module; segfault if using gtdb_r226 instead of gtdb_r220+virus+human database Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

steineggerlab/Metabuli#175 · 4 comments · Opened Feb 24, 2026
classifiedRefiner fails to produce krona_refined.html Open

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

steineggerlab/Metabuli#172 · Opened Jan 20, 2026
Understanding Metabuli scores on real metagenomic datasets Open

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

steineggerlab/Metabuli#171 · 10 comments · Opened Jan 19, 2026
Can Metabuli be used for the discovery of new viruses? Open

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

steineggerlab/Metabuli#167 · 1 comment · 1 reaction · Opened Dec 5, 2025
Integration of pyrodigal-gv for viral gene prediction in Metabuli Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

steineggerlab/Metabuli#160 · 1 comment · Opened Oct 15, 2025
How to deal with binning artifacts in the database? Open

Difficulty 5/5 Over a week Newbie friendliness 38/100

steineggerlab/Metabuli#159 · 3 comments · Opened Oct 12, 2025
extract question: How to extract the unclassified reads Open

Difficulty 3/5 1-2 days Newbie friendliness 42/100

steineggerlab/Metabuli#158 · 1 comment · Opened Oct 1, 2025
Slow building of GTDB database Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

steineggerlab/Metabuli#152 · 8 comments · Opened Jul 20, 2025
Segmentation fault on classify with refseq_virus, [Edit: unless --max-ram is used] Open

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

steineggerlab/Metabuli#151 · 3 comments · Opened Jul 18, 2025
--seq-mode for estimating MAGs contig abundance Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

steineggerlab/Metabuli#147 · 11 comments · Opened Jun 24, 2025
Does Metabuli classify has a resume mode ? Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

steineggerlab/Metabuli#140 · 2 comments · Opened May 11, 2025
Combined database for overall classification in one run Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

steineggerlab/Metabuli#131 · 8 comments · Opened May 7, 2025
From metabuli to phyloseq Open

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

steineggerlab/Metabuli#130 · 5 comments · Opened May 7, 2025
createnewtaxalist is not completing Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

steineggerlab/Metabuli#125 · 4 comments · Opened Apr 16, 2025
Feature request: `classify` output to full taxonomy Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

steineggerlab/Metabuli#123 · 13 comments · Opened Mar 18, 2025
Contigs tax assignment and PacBio Revio Open

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

steineggerlab/Metabuli#119 · 1 comment · Opened Mar 4, 2025
Input query was recognized as database Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

steineggerlab/Metabuli#113 · 7 comments · Opened Jan 24, 2025
Database for Eukaryotes Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

steineggerlab/Metabuli#98 · 4 comments · Opened Oct 24, 2024
--match-per-kmer increasing indefinitely Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

steineggerlab/Metabuli#97 · 7 comments · Opened Oct 18, 2024
Issue with incorrect virus classification using metabuli binning2report function and suggestion for ICTV taxonomy update Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

steineggerlab/Metabuli#96 · 7 comments · Opened Oct 14, 2024
Feature request Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

steineggerlab/Metabuli#95 · 3 comments · Opened Oct 8, 2024
Missing Header and Log File in Metabuli Output Open

enhancement

Difficulty 4/5 3-5 days Newbie friendliness 35/100

steineggerlab/Metabuli#93 · 2 comments · Opened Oct 2, 2024
refseq_virus/NCBI taxonomy behind current VMR.39 on more than a year Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

steineggerlab/Metabuli#86 · 17 comments · Opened Sep 10, 2024
Database creation Open

Difficulty 4/5 3-5 days Newbie friendliness 20/100

steineggerlab/Metabuli#73 · 6 comments · Opened Jul 29, 2024
Segmentation fault when running add-to-library Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

steineggerlab/Metabuli#70 · 2 comments · Opened Jul 7, 2024
Bam file as input ? Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

steineggerlab/Metabuli#66 · 1 comment · Opened May 28, 2024
Older database support? Open

Difficulty 4/5 3-5 days Newbie friendliness 20/100

steineggerlab/Metabuli#63 · 5 comments · Opened Apr 8, 2024
Metabuli for eukaryotes: use cases and future plans. Open

enhancement

Difficulty 5/5 Over a week Newbie friendliness 25/100

steineggerlab/Metabuli#55 · 1 reaction · Opened Feb 6, 2024
Profiling eukaryote contigs? Open

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

steineggerlab/Metabuli#54 · 3 comments · Opened Feb 2, 2024
Metabuli produces very different results from mmseqs on longread contigs Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

steineggerlab/Metabuli#41 · 3 comments · Opened Sep 15, 2023

steineggerlab/Metabuli

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