| description | The CONSENSUS programs are a collection of programs for determining and analyzing DNA and protein patterns describing functional elements. |
| version | |
| homepage | http://gzhertz.home.comcast.net/~gzhertz/ |
| commands | consensus fasta-consensus genbank-consensus gmat-inf-gc make-matrix p-value patser rand-seqs seq-modifier wconsensus con-filter |
| manpages | consensus gmat-inf-gc make-matrix p-value patser rand-seqs wconsensus |
| documentation | |
| interfaces | consensus |
| description | Compute synonymous sequences that maximize protein evolutionary landscape exploration. |
| version | 1.0 |
| homepage | |
| commands | elp |
| manpages | |
| documentation | |
| interfaces | elp |
| description | Clusters of binding sites. |
| version | 1.0 |
| homepage | |
| commands | gruppi |
| manpages | gruppi |
| documentation | |
| interfaces |
| description | mreps is a software for identifying serial repeats (usually called tandem repeats) in DNA sequences. |
| version | 2.5 |
| homepage | http://bioinfo.lifl.fr/mreps/ |
| commands | mreps |
| manpages | |
| documentation | |
| interfaces | mreps |
| description | The pftools package contains programs for generalized profile applications. |
| version | 2.3 |
| homepage | |
| commands | gtop pfmake pfscan pfw ptoh htop pfscale pfsearch psa2msa 2ft 6ft ptof |
| manpages | 2ft 6ft gtop htop pfmake pfscale pfscan pfsearch pfw psa psa2msa ptof ptoh xpsa psa xpsa |
| documentation | |
| interfaces | pftools |
| description | Pattern discovery tool. |
| version | 2.1 |
| homepage | http://www.ii.uib.no/~inge/Pratt.html |
| commands | pratt |
| manpages | pratt |
| documentation | |
| interfaces | pratt |
| description | Primer design software (mostly derived from primer 0.5). |
| version | |
| homepage | |
| commands | primo |
| manpages | |
| documentation | |
| interfaces | primo |
| description | Search for Prosite patterns in protein sequences. |
| version | 0.02a |
| homepage | |
| commands | prose prose+ |
| manpages | prose prose+ |
| documentation | |
| interfaces | prose |
| description | RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences. |
| version | 3.1.5 |
| homepage | http://www.repeatmasker.org/ |
| commands | ProcessRepeats DateRepeats RepeatMasker |
| manpages | |
| documentation | |
| interfaces |
| description | A method for fast database search for all k-nucleotide repeats |
| version | |
| homepage | |
| commands | repeats |
| manpages | |
| documentation | |
| interfaces | repeats |
| description | Search for patterns in DNA and protein sequences. |
| version | 97 |
| homepage | |
| commands | scan_for_matches show_hits |
| manpages | scan_for_matches |
| documentation | |
| interfaces | scan_for_matches |
| description | Multiple Prosite motifs searching. |
| version | 1.0 |
| homepage | |
| commands | sig |
| manpages | sig |
| documentation | |
| interfaces | sig |
| description | A coalescent program for the simulation of complex recombination patterns over large genomic regions under various demographic models. |
| version | 2.1.2 |
| homepage | http://cmpg.unibe.ch/software/simcoal2/ |
| commands | simcoal |
| manpages | |
| documentation | |
| interfaces |
| description | SMILE is a tool that infers motifs in a set of sequences, according to some criterias. |
| version | 1.47 |
| homepage | http://www-igm.univ-mlv.fr/~marsan/smile_english.html |
| commands | smile |
| manpages | smile |
| documentation | |
| interfaces | smile |
| description | tacg is a command-line program that performs many of the common routines in pattern matching in biological strings. |
| version | 4.1.0 |
| homepage | http://tacg.sourceforge.net/ |
| commands | tacg |
| manpages | tacg |
| documentation | |
| interfaces | tacg |
| description | tRNA detection in large-scale genome sequence. |
| version | 1.23 |
| homepage | http://selab.janelia.org/software.html#trnascan |
| commands | tRNAscan-SE |
| manpages | tRNAscan-SE |
| documentation | |
| interfaces | trnascan |