BioPHP PHP for Bioinformatics


The aim of this site is to share knowledge by using a Wiki-like service: classes, functions
and minitools may be edited by registered users. More info here.


GenePHP - Download

Sequence Class
Sequence Database Class
Sequence Aligment Class
Restriction Enzyme Class
Miscellaneus Class

 

Mark's BioPHP

 

 

 

Functions

Tools

Minitools - Download all minitools (.zip)

demo Sequence manipulation and data
demo Melting Temperature (Tm) Calculator
demo PCR Amplification
demo Microsatellite Repeats Finder
demo Find Palindromic Sequences
demo Alignment of DNA/Protein sequences
demo Restriction digest of DNA
demo DNA to protein
demo Protein to DNA
demo Microarray analysis: adaptive quantification
demo Protein sequence information
demo Reduced alphabets for proteins
demo Chaos Game Representation
demo GC-, AT-, KETO- and oligo-skews generator
demo Oligonucleotide Frequency
demo Oligonucleotides for distance among sequences
demo Random sequences
demo Useful formulas
Minitools for Stats - Download all (.zip)

BioPHP is an open source project (GNU GLP v.2 license)

Related sites

Open Bioinformatics Foundation
BioJava
Biopython
Bioperl
Bioruby
OBDA
DAS
MOBY
EMBOSS