zhaoxia413 Goto Github PK

16s_qiime_wangyingnan

rawdata2visaulaization

american-gut

American Gut open-access data and IPython notebooks

amplicon

Statistics and visualization for amplicon data

amplicon_sequencing_pipeline

Pipeline for computing OTU tables from 16S or ITS amplicon sequencing data.

ancom

R scripts for Analysis of Composition of Microbiomes (ANCOM).

antigen.garnish

Ensemble Antigen Prediction and Quality Analysis from DNA Variants and Proteins in R

any2fasta

Convert various sequence formats to FASTA

appscangeo

Source code for ScanGEO Shiny App

atlas

ATLAS - Three commands to start analysing your metagenome data

awesome-bioinformatics-tools

A curated list of awesome Bioinformatics software, tools and resources

bacpipe

bactopia

A flexible pipeline for complete analysis of bacterial genomes

baxter_glne007modeling_genomemed_2015

Microbiota-based model improves the sensitivity for detecting colonic lesions

bbmap

(Not Offical) BBMap short read aligner, and other bioinformatic tools.

betareg

:exclamation: This is a read-only mirror of the CRAN R package repository. betareg — Beta Regression

biobakery

bioBakery tools for meta'omic profiling

biobakery_workflows

bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validated tools and parameters.

bmi_micro

BMI_CRC related microbiome analysis

bmtools

A collection of scripts to assist with developing networks in BMTK (https://github.com/AllenInstitute/bmtk)

breseq-rm-bg

Removing control/background mutations from breseq output index.html

brms

brms R package for Bayesian generalized multivariate non-linear multilevel models using Stan

bugbase

capsid

CaPSID: Computational Pathogen Sequence IDentification

caret

caret (Classification And Regression Training) R package that contains misc functions for training and plotting classification and regression models

checkm

Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes

circlator

A tool to circularize genome assemblies

coconut

:exclamation: This is a read-only mirror of the CRAN R package repository. COCONUT — COmbat CO-Normalization Using conTrols (COCONUT)

crassphage

Sequencing and analysis of crAssphage regions from around the globe

crc_meta

Code and analysis results for the CRC shotgun meta-analysis

curatedmetagenomicdata

Curated and processed metagenomic data through ExperimentHub