Sample Sequences in FASTA format | |
| File 1 | Protein sequences in FASTA format |
| File 2 | Aligned Protein sequences in FASTA format |
| File 3 | Two short Proteins sequences in FASTA format |
| File 4 | A short Proteins sequences in FASTA format for SW |
| File 5 | A short Proteins sequences in FASTA format for SW |
Perl Implementation of some basic sequence comparison algorithms. | ||
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PLEASE NOTE: These algorithms are only meant to be used as pedagogic support. They are simplified versions of the real stuff and are not meant to be used for research purposes. |
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Program
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Description
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Usage
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| hello_World.pl | Hello World... | hello_world |
| bubble_sort.pl | sorts number in increasing order | bubble_sort |
| dna2rna.pl | translate DNA sequences into RNA sequences | bubble_sort file file : Sequence(s) in FASTA format. output: Sequence(s) in FASTA format. |
| dotter.pl | makes an ascii dotter of two sequences | dotter.pl file(s) file(s): Sequence(s) in FASTA format. output: dot-matrix. |
| score_aln.pl | scores a pair-wise aln | score_aln.pl file(s) file(s): Aligned Sequence(s) in FASTA format. |
| nw.pl | Global aln of two sequences | nw.pl file1 file2 files: Aligned Sequence(s) in FASTA format.One sequence per file output:Aligned sequences in FASTA |
| sw.pl | Local aln of two sequences | sw.pl file1 file2 files: Aligned Sequence(s) in FASTA format.One sequence per file |
| kdotter.pl | Computation of the common Ktup (k=1) between two sequences | kdotter.pl file files: Sequence(s) in FASTA |
| score_maln.pl | Star and Sp evaluation of a maln | score_maln.pl file files: Aln Sequence(s) in FASTA |
| pnw.pl | Global Alignment of two profiles | kpnw.pl file1 file2 files: Aln Sequence(s) in FASTA |
| kpnw.pl | Global Alignment of two profiles in time linear with the number of sequences | kpnw.pl file1 file2 files: Aln Sequence(s) in FASTA |
| score_maln.pl | Star and Sp evaluation of a maln | score_maln.pl file1 files: Aln Sequence(s) in FASTA |
| maln.pl | Align N sequences in the provided order. Uses pnw.pl | maln.pl file1 files:Sequence(s) in FASTA |