@@ -57,7 +57,7 @@ The following list of options can also be accessed by running `./C-RCPred`:
-i Input interaction secondary structure files,
-c Constraint files where constraints are in the same order than the secondary structure and interaction files
-p Probing data file for each RNA, in the same order than the fasta files (if no data for an RNA, an empty file is needed)
-o Format of output "d" (dot-parenthesis, default), "j" (json) or "b" (base pair list format)
-o Format of output "d" (dot-parenthesis, default), "j" (JSON) or "b" (base pair list format)
-e Energy model (0: No energy model; use energies computed by upstream tools, 1: ViennaRNA package model; default, 2: NUPACK model)
-t Threshold for compatibility RNA (0->100, default 100)
-l Lower probing threshold (0->100, if not specified, probing values between 0% and the upper threshold once normalized will not be taken into account)