nbchub Goto Github PK

2022-06-30-dtu

BGCflow workshop during KAIST visit at DTU

absprestree

Create a phylogenetic tree with an absence/presence matrix of biosynthetic gene clusters

arts_v3

An experimental fork of ARTS2 (or 3?) running on python3. Use at your own risk. Forked from https://bitbucket.org/mehmetdirenc/arts_v3/src/master/

automlst-simplified-wrapper

A fork of autoMLST with a simplified wrapper script bypassing additional organism selection.

bgcflow

Snakemake workflow for the analysis of biosynthetic gene clusters across large collections of genomes (pangenomes)

bgcflow_dbt-duckdb

An ELT framework based on DBT and DuckDB to process BGCFlow output tables

bgcflow_report_demo

BGCFlow report demo

bgcflow_tutorial

A short introduction to BGCflow data exploration

bgcflow_wrapper

A snakemake wrapper and utility tools command line interface for BGCFlow.

big-scape

Similarity networks of biosynthetic gene clusters

bigslice

A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data

chatbgc

Ask questions about biosynthetic gene clusters in your genome dataset using Retrieval-Augmented Generation (RAG) from a BGCFlow run.

meta_data_figure1

Notebook containing scripts to recreate Figure 1 of the G1034 paper

multiplexing_scripts

Scripts used for multiplexed base editing project

saccharopolyspora_manuscript

Jupyter notebook companion for the manuscript "BGCFlow: Systematic pangenome workflow for the analysis of biosynthetic gene clusters across large genomic datasets."

snakemake-umetaflow

Created for testing the metabolomics pipeline through snakemake

trans-at_g1034

Analysis of TransAT PKS in the G1000 dataset

type1_protospacers

Script for the identification of type I(-C) protospacer sequences and evaluation of off-target sites.

umetaflow_tutorial