EvryRNA / C-RCPred

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Guillaume POSTIC
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...@@ -58,7 +58,7 @@ The following list of options can also be accessed by running `./C-RCPred`: ...@@ -58,7 +58,7 @@ The following list of options can also be accessed by running `./C-RCPred`:
58 -c Constraint files where constraints are in the same order than the secondary structure and interaction files 58 -c Constraint files where constraints are in the same order than the secondary structure and interaction files
59 -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) 59 -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)
60 -o Format of output "d" (dot-parenthesis, default), "j" (json) or "b" (base pair list format) 60 -o Format of output "d" (dot-parenthesis, default), "j" (json) or "b" (base pair list format)
61 - -e Energy model (0: No energy model (use energies computed by upstream tools)), (1: ViennaRNA package model, default), (2: NUPACK model) 61 + -e Energy model (0: No energy model; use energies computed by upstream tools, 1: ViennaRNA package model; default, 2: NUPACK model)
62 -t Threshold for compatibility RNA (0->100, default 100) 62 -t Threshold for compatibility RNA (0->100, default 100)
63 -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) 63 -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)
64 -u Upper probing threshold (0->100, if not specified, probing values between the lower threshold and 100% once normalized will not be taken into account) 64 -u Upper probing threshold (0->100, if not specified, probing values between the lower threshold and 100% once normalized will not be taken into account)
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