dewadewi2020 Goto Github PK

abricate

:mag_right: :pill: Mass screening of contigs for antimicrobial and virulence genes

adegenet

adegenet: a R package for the multivariate analysis of genetic markers

amr-finder-

AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.

ariba

Antimicrobial Resistance Identification By Assembly

bds-files

Supplementary files for my book, "Bioinformatics Data Skills"

biobakery

bioBakery tools for meta'omic profiling

bioconda-recipes

Conda recipes for the bioconda channel.

bioinformatics-with-python-cookbook-third-edition

Bioinformatics with Python Cookbook, Third Edition

bioproject

Code and scripts to run the bioinformatics tools for the report of Narita floor swabs - MRA01092-22

dorado

Oxford Nanopore's Basecaller

dragonflye

:dragon: :fly: Assemble bacterial isolate genomes from Nanopore reads

ds4gd

Data Science for Genome Dynamics - Keio Uni

fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

ggtree

:christmas_tree:Visualization and annotation of phylogenetic trees

introbi

BioInformatics

kraken2

The second version of the Kraken taxonomic sequence classification system

kraken2-server

Kraken2 Server

mashtree

:deciduous_tree: Create a tree using Mash distances

medaka

Sequence correction provided by ONT Research

metasub

metasub_cap

A comprehensive pipeline for short read metagenomic data

microbetrace

The Visualization Multitool for Molecular Epidemiology and Bioinformatics

mlst

:id: Scan contig files against PubMLST typing schemes

monashdatafluency.github.io

The Monash Data Fluency website.

pgap

NCBI Prokaryotic Genome Annotation Pipeline

phangorn

Phylogenetic analysis in R

phylogenetics-class

A course in the theory and practice of phylogenetic inference from DNA sequence data

phylophlan

Precise phylogenetic analysis of microbial isolates and genomes from metagenomes

prokka

:zap: :aquarius: Rapid prokaryotic genome annotation

python-workshop-base

The master template repository for Monash Data Fluency Python workshop modules