terencedong Goto Github PK

abricate_arg

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

ags-and-acn-tools

Fast and accurate Average Genome Size and 16S rRNA gene Average Copy Number computation in metagenomic data

antibiotic_recovery_study

Data and scripts of Antibiotic Recovery Study

argnet

args_oap

ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Database

chat-gpt-google-extension

A browser extension to display ChatGPT response alongside Google Search results

cmseq

Set of utilities on sequences and BAM files

copd_multiomics

This repository contains computer codes for main analyses of the manuscript titled 'Multi-omic Landscape of Airway Microbe-Host Interaction in Chronic Obstructive Pulmonary Disease'.

coverm

Read coverage calculator for metagenomics

easymetagenome

Easy Metagenome Pipeline

easymicrobiomer

Using R language in microbiome analysis

fastspar

Rapid and scalable correlation estimation for compositional data

gene_exchange_networks_arg

gmhi_2020

Scripts for reproducing results shown in Gupta VK et al. "A Predictive Index for Health Status using Species-level Gut Microbiome Profiling". Nature Communications, 2020. https://doi.org/10.1038/s41467-020-18476-8.

gut_resistotype

gutmircobiome_womenhealth

Disentangling the age-dependent manner in the associations between gut microbiome and women’s health: a multi-cohort microbiome study

interpretable-ai-book

Code associated with my Interpretable AI Book (https://www.manning.com/books/interpretable-ai)

mbioassy

meqo

metacherchant

metagenomeprocessing

A pipeline for assembly, annotation and taxonomic classification of metagenomes after sequencing

metawrap

MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis

microbiome

microeco

An R package for data analysis in microbial community ecology

mobilegeneticelementdatabase

Contains a fasta format database of a large variety of mobile genetic elements and an annotation file

moleculargraph

Notebook tutorials for MolecularGraph.jl

multimodal-metagenomic-analysis

pyphlan

rush

A cross-platform command-line tool for executing jobs in parallel

seqkit

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation