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16spip

16sPIP: A Comprehensive Analysis Pipeline for Rapid Pathogen Detection in Clinical Samples Based on 16S Metagenomic Sequencing

args-oap-v2.0

This is the source code for ARGs-OAP v2.0 construction

china-map-geojson

🇨🇳 :earth_asia: 🇨🇳

crassphage_project

Source code for the crAssphage project

customlayout

Simple extension of basic layout function from R.

easy_microbiome

R 16S

easystat

EasyStat

echarts-map-demo

echarts地图geoJson行政边界数据的实时获取与应用，省市区县多级联动下钻，真正意义的下钻至县级【附最新geoJson文件下载】

ecosimr

Repository for EcoSimR, by Gotelli, N.J. , Hart E. M. and A.M. Ellison. 2014. EcoSimR 0.1.0

feast

Fast expectation maximization for microbial source tracking

ggclusternet

Microbial ecological network visualization clustering

icamp1

Infer Community Assembly Mechanisms by Phylogenetic bin-based null model analysis (Version 1)

imagegp

mapdownload

高德地图、百度地图（包括百度自定义地图）、腾讯地图、OpenStreetMap、CartoDb、ArcGIS在线地图的下载

microbiomestatplot

Interpretation and visualization of microbiome charts

microeco

An R package for data analysis in microbial community ecology

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

multifunc

A package for the analysis of how drivers affect multiple functions in a system.

mvpart

Multivariate partitioning

note

nst

Normalized Stochasticity Ratio in community assembly

per-simper-dnci_tutorial

PER-SIMPER and DNCI Dispersal-Niche Continuum Index R function(), help and tutorial. Start with READ ME.txt !

phyloseq_translate

phyloseq R

plspm

R package plspm

r-code

R code corresponding to paper published in Nature Communications by Xiao Zhang et al., 2020

sheng-xin-xiao-bai-yu

历史文档备份（只包含2019年和2020年）

sheng-xin-xiao-bai-yu-2021

历史文档备份（2021年）

sickle

Windowed Adaptive Trimming for fastq files using quality

taxadiva

TAXonomy Assignment and DIVersity Assessment - wrapper script for facilitating analysis of nifH amplicon sequences

titan2

Threshold Indicator Taxa Analysis