Downloads

Free Desktop version of BioDatomics

We have provided a version of BioDatomics for a chance to try for yourself the huge functionality and wide range of tools that can deepen your discovery possibilities and open your eyes to a new era in the world of bioinformatics and computational analysis.

Installation notes:

First, make sure you have the latest JDK or JRE on you computer.

Note : V.0.9.3 requires JDK 6 or later and will not work with earlier versions of Java.

You may download JDK 6 from Sun Microsystems Inc web site

http://java.sun.com/javase/downloads/?intcmp=1281

start BioUML workbench installer using command line:

java -jar biouml-install-2011_10_31.jar

Note: for some methods of data analyses you will need to install R and Bioconductor

Here are the main download links:

BioDatomics-1.0.0-install.jar NEW! 12/5/2020

BioUML User Guide in .CHM format

BioUML User Guide in .PDF format

Release notes:

This is a brief overview of new features and changes in BioUML version 0.9.3:

Major changes

Core update
Eclipse runtime is updated to Equinox version 3.6.0
Java 7
Improved Windows 7 compatibility

SED-ML (Simulation Experiment Description Markup Language) support (alpha version)

import and handling of SED-ML files

run and edited as workflows

used to generate simulation plots

Improved BioPAX support

BioPAX import/export, level 2, 3 (alpha version)

display BioPAX pathways in SBGN notation

graph search, full text search

Graph search enhancements

flexible merging of previous search results

improved graph layout: hierarchical layout, orthogonal layout

Diagram state refactoring

using transactions for compound edits

possibility to remove transaction from changes

Data import/export improvements:

FTP upload - possibility to upload huge data from user’s ftp site

text and html files can be imported

several image formats can be imported and viewed (jpg, png, etc.)

results can be exported as generic, text, html, or image files.

special document types for user data: text, images, html

Data handling improvements

multiple tables can be joined

columns with identical names may be merged automatically

Workflow improvements

now possible to include JavaScripts into workflows

more comfortable handling of folders and result files

handling of circular processes

Algorithms for NGS and sequence analysis

Bowtie wrapper

peak detection MACS (update)

motif discovery wrapper for ChIPMunk

motif discovery IPS-align

motif logo (on the base of PWM)

errors estimation: false positive, FDR, ROC curves

Embedded chat for collaborative work and on-line consultations (pilot version)

(you need to register before at https://biostore.biouml.org)

BioUML server

new system for authorization and access rights: Biostore (https://biostore.biouml.org)

ChIP-SEQ pipeline (available only on test server)

Available videos about BioDatomics:

YouTube Video

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