diff --git a/EukPhylo-Part-2:-MSAs,-trees,-and-contamination-loop.md b/EukPhylo-Part-2:-MSAs,-trees,-and-contamination-loop.md index d46b269..b496dbc 100644 --- a/EukPhylo-Part-2:-MSAs,-trees,-and-contamination-loop.md +++ b/EukPhylo-Part-2:-MSAs,-trees,-and-contamination-loop.md @@ -19,7 +19,7 @@ The following are required to run EukPhylo part 1. The dependencies are confirme * [tqdm](https://tqdm.github.io/) (version 4.66.4; unlikely to matter) * [Guidance](https://taux.evolseq.net/guidance/) (version 2.0.2) * Note that once you have downloaded Guidance, you will likely have to run the command [chmod u+x](https://www.computerhope.com/unix/uchmod.htm) on the guidance executable script (found within the www folder) as well as all dependency executable scripts (found within the programs folder). - * Both the Guidance AND TrimAL folders as downloaded from the respective websites (see TrimAL link below) should be placed in the Scripts folder (see more info on folder structure below). + * Both the Guidance AND trimAl folders as downloaded from the respective websites (see trimAl link below) should be placed in the Scripts folder (see more info on folder structure below). * [trimAl](https://vicfero.github.io/trimal/index.html) (version 2.rev0) * [MAFFT](https://mafft.cbrc.jp/alignment/software/) (version 7.49) * [IQ-Tree](http://www.iqtree.org/) (version 2.1.2) and/OR [RAxML](https://cme.h-its.org/exelixis/web/software/raxml/) (version 8.2.12) and/OR [FastTree](https://microbesonline.org/fasttree/) (version 2.1)