Pinned Repositories
atlas
ATLAS - Three commands to start analyzing your metagenome data
16S-dada2
Snakemake pipeline for amplicon sequencing using dada2
Bubbleplot
FastDrep
fastp
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
ipath3
Python wrapper for ipath3
Krak
Snakemake for flexitaxd and Kraken2
stamps2019
Materials for the STAMPS 2019 course at the MBL in Woods Hole, MA, USA
statsplot
SilasK's Repositories
SilasK/ipath3
Python wrapper for ipath3
SilasK/16S-dada2
Snakemake pipeline for amplicon sequencing using dada2
SilasK/statsplot
SilasK/FastDrep
SilasK/fastp
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
SilasK/Snakebread
Snakemake workflow for Metaphlan and Humann
SilasK/2022-search-sra-with-mastiff
Tools and utilities for making use of mastiff
SilasK/atlas
:earth_americas: ATLAS - a framework for assembly, annotation, and genomic binning of metagenomic and metatranscriptomic data.
SilasK/Auto-GPT
An experimental open-source attempt to make GPT-4 fully autonomous.
SilasK/CDM_pipeline
SilasK/DRAM
Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes
SilasK/genome-properties
SilasK/genome_uploader
Python script to upload bins and MAGs to ENA (European Nucleotide Archive)
SilasK/humann
HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).
SilasK/linguist
Language Savant. If your repository's language is being reported incorrectly, send us a pull request!
SilasK/Metagenome-Profile
SilasK/Metagenome-QC
Snakmake-workflow for qc
SilasK/named_array
SilasK/old_webpage_production
SilasK/profiler
Fast profiler using mmseqs
SilasK/quarto-report
Template for reports using Quarto.
SilasK/quarto_article
SilasK/silask.github.io
SilasK/snake_plass
SilasK/snake_strainGE
SilasK/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
SilasK/snakemake-wrapper-utils
Utility functions and classes shared between Snakemake wrappers
SilasK/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
SilasK/upload_genomes
SilasK/use_subspecies_catalog
Use specific sourmash index to quantify bacterial taxa from metagenomic samples