mw55309

ideel

Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes

Kraken_db_install_scripts

Updated Kraken DB install scripts to cope with new-ish NCBI structure

perceptions

Base R version of https://github.com/zonination/perceptions

poRe_docs

MAGpy

Snakemake pipeline for annotating metagenome-assembled genomes (MAGs) (pronounced mag-pie)

nanopore-software

A list of software for Oxford Nanopore data

metagenomics_scripts

poRe_scripts

Linux command line scripts to be used with poRe

download_geba

Perl script to download the 1003 GEBA genomes doi:10.1038/nbt.3886

MinION_SynthMetagenome

viRome_legacy

Legacy R code for the R package viRome DOI:10.1093/bioinformatics/btt297

DRAM_hacks

Hacks to get the DRAM sqlite DB to build

genome_vs_rh_maps

Preliminary code to plot genomic co-ords vs RH maps

snakemake_split

An example of splitting up Snakemake input into chunks using CheckM as an example

crisp_colours

Also known as chips in strange countries. A global standard for crisp/chip packaging colours.

cwl_rna_seq

A very basic CWL RNA-Seq workflow using Kallisto

kegg_diamond

Snakemake pipeline for converting FASTQ to KO counts using DIAMOND

viRome

Code for viRome

chicken_mag_mapping

CoDa_microbiome_tutorial

Workshop for NGS'18 conference, Barcelona 2018

crash_gcp

Demo

Demo repo for tutotial articles on Opensource.com

dog_microbiome

kraken_output_parser

Quick script to allow parsing of Kraken report files into nice manageable CSVs

MAGCloudCosts

Costing MAG creation on the cloud

mw55309.github.io

Test github.io

NA12878

Data and analysis for NA12878 genome on nanopore

nanofilt

Filtering and trimming of Oxford Nanopore sequencing data

roslinmicrobiome

:sparkles: Build a beautiful and simple website in literally minutes. Demo at http://deanattali.com/beautiful-jekyll

snakemake

This is the development home of the workflow management system Snakemake. For general information, see