diff --git a/README.md b/README.md index fd0b6b7..b7dc80a 100644 --- a/README.md +++ b/README.md @@ -3,6 +3,8 @@ Workflow to run [squirrel](https://github.com/aineniamh/squirrel) through a GUI **S**ome **QUI**ck **R**earranging to **R**esolve **E**volutionary **L**inks +A full walkthrough of this workflow can be found [here](https://artic.network/mpxv/mpxv-phylogenetics-epi2me-sop.html) + Squirrel allows the following analyses of MPXV Clade I or Clade II sequences: 1. Generate an alignment 2. Run basic sequence QC on the alignment looking for standard errors arising from consensus building pipelines or low sequencing depth @@ -24,4 +26,4 @@ If you check the `run_phylo` option, it will construct a tree using IQtree. You If you check both the `run_phylo` and `seq_qc` options, and additional step is performed to generate a more informed mask file. ## More information -More information on the input parameters and methods can be found on [the main page for squirrel](https://github.com/aineniamh/squirrel). \ No newline at end of file +More information on the input parameters and methods can be found on [the main page for squirrel](https://github.com/aineniamh/squirrel).