Podbat Downloads
Podbat version 0.6.4 (2015-9-25)
- minor improvements
- Macintosh (OS X version 1.4 or higher)
- Platform independent zipped Jar-folder (Java version 1.6)
- Annotations (in package)
- S. pombe (ASM294v2.28)
- Gene Ontologies from Ensembl: schizosaccharomyces_pombeGO.txt
- Genome (8_61_1a_dna.txt)
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Example of GEO datasets for testing:
H2Bub1 (ChIP-chip, TAS format, 2004 genome) GSE49874
MNase (MNase-seq, WIG format, 294v2 genome) GSM1201968
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Package (v 0.4) for evaluation,
including instructions and test data (2011-3-19).Files can now be downloaded from Sourceforge.
You an also access the documentation in a PDF format.
- Previous versions:
0.6.0 (2014-7-31)
- many bugs fixed regarding sequnce loading.
- alignment of sequencing data fixed.
- now reads "gff3" describing any genome (located in the new "genome" folder).
- heatmap functionality.
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Windows executable
Platform independent zipped Jar-folder (Java version 1.6)0.5.7 (2014-2-11)
- reading sequence data better.
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Windows executable
Platform independent zipped Jar-folder (Java version 1.6)0.5.7 (2013-11-18)
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Windows executable
Platform independent zipped Jar-folder (Java version 1.6)0.5.6 (2013-9-10)
-Sequencing data can be loaded directly (SAM files)
- Minor bug fixes.
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Windows executable
Platform independent zipped Jar-folder (Java version 1.6)0.5.4 (2012-7-27)
-A bug in the gene set enrichment tables is fixed so that only the latest results are shown
- Possibility to export previous gene set comparisons
-Hypergeometric P-values corrected
- Improved figure export (axes showing and border round the image)
-The average line is saved with the session
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Windows executable
Platform independent zipped Jar-folder (Java version 1.6)
Example experimental data H2A.Z binding (for Podbat version 0.5.4beta)0.5.3 (2011-12-9)
-Improved plot capabilities
-'Save session' saves changes to the visualization
-Sorting of numbers now sorts numbers and not text
-columns can be removed or hidden, and filtered
-possilibity to draw moving averages, both of gene averages and probes
-improved memory usage
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Windows executable
Platform independent zipped Jar-folder (Java version 1.6)
Example experimental data (additional downloads) H2A.Z binding (for Podbat version 0.5.3)0.5.1 (2011-9-21)
-Many minor issues corrected, such as you now can:
-zoom in at small regions
-make more lists in list panel
-export graph as in the view
-control y-axis in dialog box
-change sample names
-move sample panels
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Platform independent zipped Jar-folder (Java version 1.6)0.5.1 (2011-9-21)
-Corrected issues with region finding
-Improved visualization
-Logs available
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Platform independent zipped Jar-folder (Java version 1.6)0.5.0 (2011-8-15)
- Fixed issue with remote access to the central database.
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Platform independent zipped Jar-folder (Java version 1.6)Dataset: H2A.Z binding
0.4.8 (2011-6-23)
- Image export in several formats (GIF, JPEG, PNG, EPS)
-Improved memory management
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Platform independent zipped Jar-folder (Java version 1.6)0.4.7 (2011-6-19)
- Modification of samples
Macintosh (OS X version 1.4 or higher, 1.6 recommended)0.4.2 (2011-5-9)
- Statistical analysis with gene alignment
- Plugin accessibility
-Improved error handling
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Platform independent zipped Jar-folder (Java version 1.6)0.4.1 (2011-4-14)
- Access to sequence data.
- possibility to upload data from other sources to match elements
- Several minor bug fixes.
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Platform independent zipped Jar-folder (Java version 1.6)0.3.8 (2011-3-11)
- Major update
- The non-bundled Java version should now be better functionning.
- Data for S.cerevisiae included.
- Several major and minor bug fixes.
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Platform independent zipped Jar-folder (Java version 1.6)0.3.2 (2010-12-30)
- minor bug fixes
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Platform independent zipped Jar-folder (Java version 1.6)
Datasets:
Nucleosome positions (Lantermann et al, 2010)
Topoisomerases and transcription (Durand-Dubief et al, 2010)0.3.1 (2010-12-03)
New features include:
- implements Hidden Markov Models to determine regions
- enables enrichment analysis of Gene Ontologies
- minor bug fixes
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Platform independent zipped Jar-folder (Java version 1.6) -
0.3.0 (2010-11-14)
New features include:
- improved visualization of genome averages
- manages list
- remembers settings from previous settings
- ships with three annotations for S.pombe
- connects to Ensembl to retrieve data
Macintosh (OS X version 1.4 or higher, 1.6 recommended)
Platform independent zipped Jar-folder (Java version 1.6)