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Laboratory of Food Systems Biotechnology

Bokulich Lab (FSB), Institute of Food, Nutrition, and Health, D-HEST, ETH Zurich

70 followers
Zurich, Switzerland
https://fsb.ethz.ch/

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RESCRIPt RESCRIPt Public

REference Sequence annotation and CuRatIon Pipeline

Python 98 25
q2-fondue q2-fondue Public

Functions for reproducibly Obtaining and Normalizing Data re-Used from Elsewhere

Python 24 8
q2-assembly q2-assembly Public

QIIME 2 plugin for (meta)genome assembly.

Python 2 14
q2-annotate q2-annotate Public

QIIME 2 plugin for functional annotation and taxonomic classification of shotgun metagenomes.

Python 4 20

Repositories

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Showing 10 of 33 repositories

q2-assembly Public
QIIME 2 plugin for (meta)genome assembly.

bokulich-lab/q2-assembly’s past year of commit activity

Python 2 BSD-3-Clause 14 10 2 Updated Mar 25, 2026
utilities Public
A collection of utilities used across repos.

bokulich-lab/utilities’s past year of commit activity

Python 0 1 0 0 Updated Mar 25, 2026
q2-subread Public
QIIME 2 plugin for read mapping and analysis with Subread.

bokulich-lab/q2-subread’s past year of commit activity

Python 0 GPL-3.0 0 0 0 Updated Mar 18, 2026
moshpit-docs Public
MOSHPIT plugin suite documentation

bokulich-lab/moshpit-docs’s past year of commit activity

Makefile 0 BSD-3-Clause 8 1 1 Updated Mar 16, 2026
q2-annotate Public
QIIME 2 plugin for functional annotation and taxonomic classification of shotgun metagenomes.

bokulich-lab/q2-annotate’s past year of commit activity

Python 4 BSD-3-Clause 20 23 5 Updated Mar 16, 2026
mishmash Public

bokulich-lab/mishmash’s past year of commit activity

Python 2 BSD-3-Clause 3 9 0 Updated Mar 13, 2026
q2-amrfinderplus Public
q2-amrfinderplus: QIIME 2 plugin to find acquired antimicrobial resistance genes and point mutations in protein and/or assembled nucleotide sequences with AMRFinderPlus.

bokulich-lab/q2-amrfinderplus’s past year of commit activity

Python 1 BSD-3-Clause 3 3 3 Updated Mar 2, 2026
q2-rgi Public
This is a QIIME2 plugin that annotates sequence data with antimicrobial resistance gene information from CARD.

bokulich-lab/q2-rgi’s past year of commit activity

Python 3 BSD-3-Clause 3 5 2 Updated Feb 26, 2026
q2-ena-uploader Public
QIIME 2 plugin for submission of metadata and raw sequence reads to ENA.

bokulich-lab/q2-ena-uploader’s past year of commit activity

Python 0 BSD-3-Clause 1 1 0 Updated Feb 26, 2026
q2-minimap2 Public
QIIME 2 plugin for sequence alignment using minimap2.

bokulich-lab/q2-minimap2’s past year of commit activity

Python 3 BSD-3-Clause 3 1 1 Updated Feb 20, 2026

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