snayfach

followers

following

stars

Stephen Nayfach's repositories

MIDAS

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

Language:PythonGPL-3.0118 12 94

MGV

Supporting code for uncultivated gut virus manuscript

Language:Python59 2 27

MAGpurify

Improvement of metagenome-assembled genomes

Language:PythonGPL-3.047 2 22

IGGdb

Database of genomes integrated from the gut microbiome and other environments

GPL-3.044 3 8

MicrobeCensus

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

Language:PythonGPL-3.041 7 30

IGGsearch

Metagenomic species profiling with enhanced coverage of the human gut microbiome

Language:PythonGPL-3.024 4 31

UHGV

Unified Human Gut Virome Catalog

Language:PythonNOASSERTION23 3 71

AssemblyEvaluator

A simple tool for evaluating a metagenomic assembly

Language:PythonGPL-3.05 20

awesome-genome-visualization

A list of interesting genome browser or genome-browser-like implementations

Language:JavaScript000

bioconda-recipes

Conda recipes for the bioconda channel.

Language:Shell000

ClustCompare

Pipeline to compare secondary metabolite biosynthetic gene clusters (BGCs)

Language:PerlGPL-3.0000

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.

Language:ShellGPL-3.0010

genome_updater

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

Language:ShellMIT000

metatrans

Translate shotgun sequences

Language:C010

MIDAS-strains

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

Language:Python02 1