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RNAeval
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RNAfold
RNAfold predicts RNA secondary structure using minimum free energy (MFE) algorithms and optionally returns partition-function ensemble metrics when explicitly enabled.
RNALfold
RNALfold reports locally stable RNA secondary structures within a sliding window and returns their start and end positions on the input sequence.
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ViennaRNA
ViennaRNA exposes a curated set of upstream-faithful ViennaRNA 2.7.2 workflows for RNA folding, density-of-states analysis, interaction prediction, local accessibility, plotting, inverse folding, and structure analysis.
RNAcofold
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RNAduplex
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RNAplex
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What RNAplfold Does
RNAplfold computes local accessibility profiles with a sliding-window partition-function workflow. ProteinIQ parses its results directly from the upstream CLI outputs and returns the generated artifacts in the Files tab.
Inputs
- Provide one or more RNA sequences in FASTA or plain-sequence format.
Settings
Window size,Maximum span, andUnpaired region length: local folding controlsCutoff: upstream probability cutoffOpening energies: request opening-energy oriented outputRNAplex output mode: request RNAplex-formatted accessibility outputTemperature: folding temperature
Output
The results table reports per-position values parsed from the upstream accessibility file for the selected mode:
- default mode: unpaired probabilities from
_lunp Opening energiesmode: opening energies from_openen
The Files tab contains the text artifacts emitted by RNAplfold, such as local accessibility tables and other generated output files for the selected mode.