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aih_metagenome

code to reproduce AIH results

amr_benchmarking

amr_prediction_pipeline

antigenictreetools

antipatch

This repository contains all published data.

art_illumina_profiles

snakemake pipeline to generate art_illumina profiles from public datasets

atsphere_cc

scripts to reproduce the analysis and figures from Bai et al., Nature, 2015

atsphere_wgs

scripts to reproduce the analysis and figures from Bai et al., Nature, 2015

auspice

Web app for visualizing pathogen evolution

barley

Bulgarelli, Garrido-Oter et al. study of the Barley root microbiota, Cell Host & Microbe, 2015.

barleymeta

scripts to reproduce the analysis and figures from Bulgarelli et al., 2015

bifoserv

Web application framework mainly for bioinformatic developers to publish their tools with an user-friendly web interface.

bifoserv_dev

Develop environment for the BiBiServ framework.

broker4microbiota

Django App for collection and storage of sequencing orders for the sequencing facility

chemlm

chommeta

scripts to reproduce the analysis and figures from Hacquard et al., Cell Host and Microbe, 2015

colicin-lysis

quantitative colicin gene analysis for Spriewald et al. paper

colletotrichum

Scripts to reproduce analysis for Hacquard et al. manuscript

corona_lineage_dynamics

SDPlots scripts for the coverage server

corona_protein_dynamics

Mutation dynamics analysis of SARS-Cov-2 S-protein based on phylogenetics and statistics

coronadatavis

Visualization and statistics of SARS-Cov2 data

covid-germany-mcmc

SARS-CoV-2 lineage importations and spread are reduced after nonpharmaceutical interventions in phylogeographic analyses

covid-germany-mcmc-one-tree-public

covid-germany-mcmc-phylogeo-tools

A phylogeo-tools for covid-germany-mcmc

deepprime2sec

ditaxa

Nucleotide-pair encoding of 16S rRNA sequences for host phenotype and biomarker detection

dna_lstm

LSTM for binary DNA sequence classification

donut

:doughnut: Donut: automated circos visualization of fasta files

eden

EDEN: evolutionary dynamics within environments

eden-visualizer

:green_apple: eden: evolutionary dynamics within environments (visualizer)