Man pages for Santaris/seqtools
Tools for oligonucleotide-centric sequence analysis
| count.multipatt.singleseq | Count (mis)matches for multiple patterns in a single sequence |
| count.singlepatt.multiseq | Count (mis)matches for a single pattern among a set of... |
| enumerate.target.sites | Cut a sequence into all possible (oligo-) target sites in a... |
| find.best.matches | Find best matches for a pattern among a set of sequences |
| gapmerize | Construct the upper-/lower case representation of LNA-oligos... |
| occurrences | Find the occurrences of each of a character vector of... |
| occurrences.singleseq | Counts the number of occurrences of a list of (short target... |
| pythia2seqmod | Split up the sequence representation of LNA-oligos used in... |
| RNAduplex | Estimates the duplex structure of a sequence (oligo) pairing... |
| RNAfold | Folds a vector of sequences using a system call to Vienna... |
| RNAhybridR | Find minimum free energy hybridisations of a long (target)... |
| RNAplfoldR | Estimate nucleotide resolution transcript accessibilty for a... |
| seqdesign2camel | Another version of seqmod2uplow |
| seqmod2plus | Construct the plus (+) representation of LNA-oligos |
| seqmod2pythia | Construct the sequence representation of LNA-oligos used in... |
| seqmod2uplow | Construct the upper-/lower case representation of LNA-oligos... |
| seqmod2uplow.strict | Filter LNA-oligos and construct the upper-/lower case... |
| simple.patterns | Detects simple sequence patterns with regexp |
