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Repository pangolin
Name: pangolin
Owner: iuc
Synopsis: Pangolin assigns SARS-CoV-2 genome sequences their most likely lineages under the Pango nomenclature system.
Pangolin uses a multinomial logistic regression model to classify SARS-CoV-2 query genomes into known Pango outbreak lineages. It reads genomes in FASTA format and produces lineage outputs in tabular format.  The model was trained on curated results from a global maximum likelihood tree of 30,000 genomes made available by GISAID.
Content homepage: https://github.com/cov-lineages/pangolin
Development repository: https://github.com/galaxyproject/tools-iuc/tree/master/tools/pangolin
Link to this repository: https://toolshed.g2.bx.psu.edu/view/iuc/pangolin/8ad84c5753ea
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/pangolin
Type: unrestricted
Revision: 30:8ad84c5753ea
This revision can be installed: True
Times cloned / installed: 1878

Contents of this repository

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Name Description Version Minimum Galaxy Version
Phylogenetic Assignment of Outbreak Lineages 4.3+galaxy2 21.09

Categories
Sequence Analysis - Tools for performing Protein and DNA/RNA analysis