diff --git a/man/generateAllAlignments2FA.Rd b/man/generateAllAlignments2FA.Rd
index 5babd22d..421d8cf7 100644
--- a/man/generateAllAlignments2FA.Rd
+++ b/man/generateAllAlignments2FA.Rd
@@ -22,18 +22,21 @@ generateAllAlignments2FA(
 \item{aln_path}{Character. Path to alignment files.
 Default is 'here("data/rawdata_aln/")'}
 
-\item{fa_outpath}{Character. Path to the written fasta file.
-Default is 'here("data/alns/")'.}
-
-\item{lin_file}{Character. Path to file. Master protein file with AccNum &
+\item{fa_outpath}{Character. Path to file. Master protein file with AccNum &
 lineages.
 Default is 'here("data/rawdata_tsv/all_semiclean.txt")'}
 
+\item{lin_file}{Character. Path to the written fasta file.
+Default is 'here("data/alns/")'.}
+
 \item{reduced}{Boolean. If TRUE, the fasta file will contain only one
 sequence per lineage.
 Default is 'FALSE'.}
 }
 \value{
+NULL. The function saves the output FASTA files to the specified
+directory.
+
 NULL. The function saves the output FASTA files to the specified
 directory.
 }
@@ -47,6 +50,12 @@ Adding Leaves to an alignment file w/ accessions
 Adding Leaves to all alignment files w/ accessions & DAs?
 }
 \details{
+The alignment files would need two columns separated by spaces:
+\enumerate{
+\item AccNum and 2. alignment. The protein homolog file should have AccNum,
+Species, Lineages.
+}
+
 The alignment files would need two columns separated by spaces:
 \enumerate{
 \item AccNum and 2. alignment. The protein homolog file should have AccNum,
@@ -54,6 +63,9 @@ Species, Lineages.
 }
 }
 \note{
+Please refer to the source code if you have alternate + file formats
+and/or column names.
+
 Please refer to the source code if you have alternate + file formats
 and/or column names.
 }
@@ -64,12 +76,6 @@ generateAllAlignments2FA()
 \dontrun{
 generateAllAlignments2FA()
 }
-\dontrun{
-generateAllAlignments2FA()
-}
-}
-\author{
-Janani Ravi
 }
 \keyword{accnum,}
 \keyword{alignment,}