From 8b4cc21889fd202653f74a2d6277170d5da9d7a4 Mon Sep 17 00:00:00 2001 From: Nava Ehsan <47612022+navaehsan@users.noreply.github.com> Date: Tue, 12 Sep 2023 21:19:38 -0700 Subject: [PATCH] Update afcn.py --- src/afcn.py | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/src/afcn.py b/src/afcn.py index ad64b51..aac857f 100755 --- a/src/afcn.py +++ b/src/afcn.py @@ -35,8 +35,8 @@ def main(): parser.add_argument("--nthreads", "-j", required=False, default="1", help="Number of threads to do fitting on") parser.add_argument("--conf", action="store_true", required=False, help="Calculate confidence intervals for aFC estimates") - parser.add_argument("--normalize", action="store_true", required=False, help="Expressions matrix has not been normalized yet") - parser.add_argument("--logtransform", action="store_true", required=False, help="Expressions matrix has not been log transformed yet") + parser.add_argument("--normalize", action="store_true", required=False, help="This will log-transform and normalize expression file") + parser.add_argument("--logtransform", action="store_true", required=False, help="This will log-transforme the expression file") parser.add_argument("--redo", action="store_true", required=False, help="Filter out low quality eqtls based on confidence intervals") parser.add_argument("--splitexpr", action="store_true", required=False, help='If set, the individual names in the expressions file will be split on "-" characters and the parts of the name on the two side of the first "-" character will be retained.') parser.add_argument("--gct", action="store_true", required=False, help="Expressions matrix is in gct format (tab separated with a Description column)")