From e2d7fa179d00e40f1d48c0cce084afb6b9dd401f Mon Sep 17 00:00:00 2001
From: "Adri K. Grow" <42044618+adriannagrow@users.noreply.github.com>
Date: Mon, 17 Feb 2025 14:32:59 -0500
Subject: [PATCH] Updated EukPhylo QuickStart (markdown)

---
 EukPhylo-QuickStart.md | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/EukPhylo-QuickStart.md b/EukPhylo-QuickStart.md
index 17bba6e..e5428b4 100644
--- a/EukPhylo-QuickStart.md
+++ b/EukPhylo-QuickStart.md
@@ -112,7 +112,7 @@ If a user choose to use their own gene families database, they need to replace t
 ### Set up:
 In a main project directory:
 * Create a `Scripts` folder containing the 8 scripts from GitHub [here](https://github.com/Katzlab/EukPhylo/tree/main/PTL2/Scripts)
-    * In addition to the scripts, also add the `trimal-trimAl` and `guidance.v2.02` folders, as downloaded from [here](https://github.com/inab/trimal) and [here](https://github.com/anzaika/guidance) (Katzlab users see [here](https://docs.google.com/document/d/1tDxaCrVEHckyvlaaY58lNQnJ4UHTRAMICdR7xzzjPTE/edit?tab=t.0))
+    * In addition to the scripts, also add the `trimal-trimAl` and `guidance.v2.02` folders, as downloaded from [here](https://github.com/inab/trimal) and [here](https://github.com/anzaika/guidance) (Smith College HPC (Grid) users see [here](https://docs.google.com/document/d/1tDxaCrVEHckyvlaaY58lNQnJ4UHTRAMICdR7xzzjPTE/edit?tab=t.0))
 * Create an empty output folder (e.g. `Output`) for results (i.e. guidance and tree outputs)
 * Create a list of ten-digit codes for your target and outgroup taxa (e.g. `taxa.txt`)
 * Create a folder (e.g. `R2Gs`) that contains the AA ReadyToGo fasta files for all taxa (from `taxa.txt`)