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16s-rdna-dada2-pipeline

**DEFUNCT** dada2-based Nextflow pipeline for multiple amplicon data. See website for up-to-date version

16s_normalization

Script for normalization of relative abundance out of DIAMOND default output (BLOSUM62 matrix) through a formula that relies on the 16S marker gene.

ancient-microbiome-denovo

anvio.org

The anvi'o community web page

arg_analysis_scripts

Scripts used to perform bioinformatic analysis of novel genes conferring resistance to macrolide and aminoglycoside antibiotics.

arg_metagenome

Metagenomic analysis workflow for the identification and quantification of antimicrobial resistance genes (ARG) from human stool samples..

argminer

Curation of Antibiotic Resistance Genes by using crowdsourcing

atlas

ATLAS - Three commands to start analyzing your metagenome data

awesome-crispr

List of software/websites/databases/other stuff for genome engineering

bakta

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

bigscale2

Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data

biobakery

bioBakery tools for meta'omic profiling

biocode

Bioinformatics code libraries and scripts

card_tools

clinker

Gene cluster comparison figure generator

deeplearning-500-questions

深度学习500问，以问答形式对常用的概率知识、线性代数、机器学习、深度学习、计算机视觉等热点问题进行阐述，以帮助自己及有需要的读者。 全书分为18个章节，50余万字。由于水平有限，书中不妥之处恳请广大读者批评指正。 未完待续............ 如有意合作，联系[email protected] 版权所有，违权必究 Tan 2018.06

deepmind-research

This repository contains implementations and illustrative code to accompany DeepMind publications

diamond

Utilizes Diamond to generate BlastX data from sequence reads

dna2proteins

A Python script to translate DNA sequences to protein sequences

dorado

Oxford Nanopore's Basecaller

emp

Code repository of the Earth Microbiome Project.

envcomputing_rda

Ecology and Multivariate Statistics Redundancy Analysis (RDA)

extract-sequence-lengths

Extract sequence lengths from a fasta file and save them to a tab-delimited text file in genome file format.

files_copy

copy files wintin file-list file

genomes-pipeline

MGnify genome analysis pipeline

germs_16s_pipeline

Pipeline for Illumina shotgun sequencing of 16S rRNA amplicon sequences

hgt-network

hookpool_client_chia

hospital_microbiome

i-vip

Integron Visualization and Identification Pipeline