Table 6 It refers to analysis that each package can by itself perform irrespective of whether it can receive as input results produced from another tool for a specific category of analysis.
Bio* and Open-source projects: limited or no visualization | |
|---|---|
Project | Comments |
R | Interfaces all major prog. languages, such as MATLAB, Perl, Python, Java, C, C++ and Fortran; wide bioinformatics, statistical and clustering analysis possibilities. |
Bioconductor | Relies on R; appropriate towards statistical analysis of microarray experiments. |
BioPerl | Relies on Perl; phylogenetic analysis, multiple sequence alignment and microarray analysis are facilitated; well-established interfaces to other prog. languages. |
BioJava | Relies on java; mainly sequence analysis; low compatibility with other languages and limited functionalities compared to BioPerl. |
BioPython, BioRuby, BioBike, BioLisp | Reliance on Python, Ruby, BioLisp, Lisp respectively; apart from the main sequence alignment, among others, microarray analysis is available too. |