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camper

This is a repository for CAMPER.

columbia_river

GitHub Repository of code used for the publication titled: Genome-resolved metaproteomics decodes the microbial and viral contributions to coupled carbon and nitrogen cycling in river sediments

dram

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

dram2

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

emerge_pipline

The pipline for the folks at emerge, they will want it eventualy

jgi-api-request

Python script is designed to fetch and process genomic data from the Joint Genome Institute (JGI) API, allowing users to request file downloads programmatically based on given taxon IDs.

join_asvbins

kb_dram

A Kbase app for DRAM

prodigal-recoding

Fork of Prodigal Gene Prediction Software to introduce recoding of stop codons

protpipeliner

This script combines MUSCLE, GBLOCKS, Prottest and RaxML for an efficient and streamlined method of building trees.

sporulation_utils

These tools help us study sporulation AMGs with DRAM-v and DRAM

stordalen_polyphenols_paper