Silas Kieser's repositories
snakemake
This is the development home of the workflow management system Snakemake. For general information, see
humann
HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).
Metagenome-QC
Snakmake-workflow for qc
use_subspecies_catalog
Use specific sourmash index to quantify bacterial taxa from metagenomic samples
snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
snakemake-wrapper-utils
Utility functions and classes shared between Snakemake wrappers
profiler
Fast profiler using mmseqs
atlas
:earth_americas: ATLAS - a framework for assembly, annotation, and genomic binning of metagenomic and metatranscriptomic data.
Auto-GPT
An experimental open-source attempt to make GPT-4 fully autonomous.
2022-search-sra-with-mastiff
Tools and utilities for making use of mastiff
linguist
Language Savant. If your repository's language is being reported incorrectly, send us a pull request!
genome_uploader
Python script to upload bins and MAGs to ENA (European Nucleotide Archive)
quarto-report
Template for reports using Quarto.
Struo2
Scalable creating/updating of metagenome profiling databases
CheckM2
Assessing the quality of metagenome-derived genome bins using machine learning
StrainGE
strain-level analysis tools