RNAmediator.ConstraintFold

Functions

checkexisting(sid, paired, unpaired, cons, ...)	Validates if output file already exists
constrain_seq(seq_record, const, conslength, ...)	takes input of fold and folds constrained and unconstrained sequences
constrain_temp(fa, temp, window, span, an, ...)	Takes Sequence and fold under temperature constraint Currently not implemented
fold(run_settings, outdir, window, span, ...)	fold prepares and submits sequences to be folded constrained and unconstrained
fold_unconstraint(seq[, temp, queue, ...])	here we take the sequence and the RNA.fold_compound and fold without constraint
foldaround(seq, fc, pos, clength, gibbs, nrg)	here we take the sequence and the RNA.fold_compound and constrain regions of length clength around it to see what happens at the original binding site
main([args])	Main process, prepares run_settings dict, creates logging process queue and worker processes for folding, calls fold
write_out(Output, window, span, temp, const)	Print results to file