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Stephen Nayfach's Projects

clustcompare icon clustcompare

Pipeline to compare secondary metabolite biosynthetic gene clusters (BGCs)

dropbox-uploader icon dropbox-uploader

Dropbox Uploader is a BASH script which can be used to upload, download, list or delete files from Dropbox, an online file sharing, synchronization and backup service.

genome_updater icon genome_updater

Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy

iggdb icon iggdb

Database of genomes integrated from the gut microbiome and other environments

iggsearch icon iggsearch

Metagenomic species profiling with enhanced coverage of the human gut microbiome

magpurify icon magpurify

Improvement of metagenome-assembled genomes

mgv icon mgv

Supporting code for uncultivated gut virus manuscript

microbecensus icon microbecensus

MicrobeCensus estimates the average genome size of microbial communities from metagenomic data

midas icon midas

An integrated pipeline for estimating strain-level genomic variation from metagenomic data

midas-strains icon midas-strains

Estimate strains from reads mapped to pan-genomes from the MIDAS database

uhgv icon uhgv

Unified Human Gut Virome Catalog

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