Sunbeam Labs

sunbeam

A robust, extensible metagenomics pipeline

sbx_demic

A sunbeam extension to run DEMIC, a peak-to-trough ratio generator for bacteria short-reads

sbx_krakenhll

sbx_report

Generates a final report, with figures, from a Sunbeam run

sbx_template

Template for Sunbeam extensions.

sbx_gene_clusters

sbx_contigs

sbx_test_action

GH Action for testing sunbeam extensions

sbx_assembly

Sunbeam extension for assembly (megahit) and annotation (prodigal)

sbx_fungi_mapping

sbx_igv

IGV extension for Sunbeam

sbx_metaphlan4

Sunbeam extension for metaphlan 4 (compatible with sunbeam 4)

sbx_metaspades_example

Example Sunbeam extension for assembly with metaspades.

sbx_phase_finder

sbx_shortbred

sbx_silva18S

sbx_spades

sbx_subsample

Sunbeam extension to subsample reads after quality control

sbx_virus_id

sbx_vsearch

Sunbeam extension for Vsearch (https://github.com/torognes/vsearch)

sunbeam-labs.github.io

sunbeam-poster

Poster for ASM NGS 2018

sbx_anvio

sbx_coassembly

Sunbeam extension to co-assemble metagenomic reads using Megahit

sbx_genome_assembly

sbx_kaiju

Kaiju metagenomics classifier for Sunbeam

sbx_kraken

Extension for running kraken2 and kraken2-biom

sbx_mapping

Extension to map reads against a set of reference genomes

sbx_metaphlan

Sunbeam extension for running MetaPhlAn