Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
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Updated
Dec 4, 2018 - Python
Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
Predict plasmids from uncorrected long read data
Assembling the cause of phenotypes and genotypes from NGS data
SaffronTree: Reference free rapid phylogenetic tree construction from raw read data
Python package for infectious disease modelling
IDseq infectious disease command-line interface
de novo virus assembler of Illumina paired reads
Python3 scripts to manipulate FASTA and FASTQ files
Please see https://github.com/chanzuckerberg/czid-workflows for the latest version of CZ ID workflows.
A multivariate multi-step LSTM forecasting model for tuberculosis incidence with model explanation
the peptide immune annotator pipeline (PIA-P) a collection of bash and Python scripts used running peptide HLA interaction from a variety of inputs
Python SIR-x model implementation
Based on labeled data, multi-class and multi-label scoring of outbreak detection, annotation or prediction algorithms.
k-mer based Pipeline to identify the Serotype from Illumina NGS reads
Prediction infectious strains of Influenza A virus for human
Antimicrobial Resistance Identification By Assembly
Simulating epidemics using Python
Order and orientation of complete bacterial genomes
A tool for modeling infectious diseases.
A tool to circularize genome assemblies
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