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RiboDetector
Accurate and rapid RiboRNA sequences Detector based on deep learningHaploflow
epitope-prediction
Quasimodo
QuasiModo: Assessing viral genomic analysis methods on HCMV strain mixturePhylogeography_Paper
This repository contains all data and code for the manuscript "Phylogeographic reconstruction using air transportation data and its application to the 2009 H1N1 influenza A pandemic".epitope-prediction-paper
Data and results for the EpitopeVec paperseq2geno2pheno
OligoMM
Scripts to reproduce analysis for Brugiroux et al. manuscriptBarleyMeta
scripts to reproduce the analysis and figures from Bulgarelli et al., 2015FrechetTreeDistance
This repository contains all code and data for the manuscript "A FrΓ©chet tree distance measure to compare phylogeographic spread paths across trees"AMR_benchmarking
SDplots
This repository contains all published data.GitHub
seq2geno
Reproducible and comprehensive sequence analyses for single-species bacterial datasetscelestial-paper-materials-devel
The lineage tree reconstruction method based on Steiner tree problem - dataset and test scripts for the paper (development version)SDplots_VaccineUpdates
Vaccine strain recommendations for human influenza A viruses with the method described in Klingen et al. 2017covid-germany-mcmc
SARS-CoV-2 lineage importations and spread are reduced after nonpharmaceutical interventions in phylogeographic analysesModel-T
CoronaDataVis
Visualization and statistics of SARS-Cov2 dataPPSplus
art_illumina_profiles
snakemake pipeline to generate art_illumina profiles from public datasetsAntiPatch
This repository contains all published data.seq2geno-dev
Computational pipeline for genomic features of bacterial populationmdasim
MDAsim 2: a Multiple Displacement Amplification Simulator (continued development from: https://sourceforge.net/projects/mdasim/)corona_lineage_dynamics
SDPlots scripts for the coverage serverPatchInference
This repository contains the source code to the graph-cut clustering algorithm.Love Open Source and this site? Check out how you can help us