TheiaCoV overview v1.0.1

TheiaCoV overview v1.0.1

Page Contents

Workflows available

Assembly_Fetch

Augur

Concatenate_Column_Content

Core_Gene_SNP

Freyja Wastewater Analysis

Kraken2

kSNP3

Lyve_SET

MashTree_FASTA

Mercury_Prep_N_Batch

Pangolin Update

Rasusa

Snippy_Streamline

Snippy_Tree

Snippy_Variants

SRA_Fetch

Terra_2_GISAID

Terra_2_NCBI

TheiaCoV Genomic Characterization

TheiaEuk

TheiaMeta

TheiaProk Workflow Series

TheiaValidate

Usher_PHB

VADR_Update

Zip_Column_Content

<aside> ℹī¸ All default parameters are set for SARS-CoV-2 analysis. Where defaults need to be adjusted for different organisms, we provide several input JSON files that contain the required changes for each organism.

</aside>

<aside> 🗝ī¸ Key resources

Docker Image and Reference Materials for SARS-CoV-2 Genomic Characterization

Workspace Reference Materials for MPXV Genomic Characterization

Overview

Shared components for all workflows

TheiaCoV_Illumina_PE

TheiaCoV_Illumina_SE

TheiaCoV_ClearLabs

TheiaCoV_ONT

TheiaCoV_FASTA

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