Call core SNPs agains a reference genome for a set of bacterial isolates, and build a phylogenetic tree based on the core-genome SNP information.
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Nov 20, 2020 - Java
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irida-pipeline
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Sep 19, 2023 - Java
Determine the sequence type of specific transposable elements in bacterial isolates.
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Oct 13, 2020 - Java
Determine the MLST sequence type for samples using PubMLST schemes in the IRIDA system
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Jun 20, 2019 - Java
Estimate the relative abundance of sequence reads originating from different species in a sample using the IRIDA system
metagenomics bioinformatics-pipeline microbial-genomics species-abundance-distributions species-identification irida-pipeline
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Jun 2, 2023 - Java
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Oct 13, 2020 - Java
Human RNA virus genotyping
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Feb 28, 2020 - Java
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