September 2008: ChipInspector Release 2.1

New or enhanced features compared to Release 2.0:

• Update of the underlying Netbeans platform to resolve proxy issues.
• Combination of data files for statistical analysis was improved. Previously possible combinations could be ignored if treatment and control lists were not of the same length for exhaustive and random pairing.
• Header of exported probe/transcripts extended to include delta values and coverage; output of chip type fixed.
• Sorting order retained for transcript exports.
• Fixed a bug where the file chooser wouldn't open when exporting data.
• Better notification when software updates are available.

As ChipInspector 2.1 is based on a more recent version of the Netbeans platform the new features are only available after downloading and installing the new version. Getting the new version via the built-in updating functionality is not possible.

July 2008: ChipInspector Release 2.0

New or enhanced features compared to Release 1.4:

• Probe annotation is based on ElDorado 7/2008.
• Improved memory management
  • tiling arrays now accessible for machines with 1 GB main memory
• Improved performance (up to 10-fold).
• Manageable user interface.
• Comprehensive positional information and annotation for all arrays.
• Chip types supported:
  • 54 Affymetrix arrays (including Tiling sets; ENCODE 1 and 2 are not supported)
  • 9 Illumina arrays
  • 6 Agilent arrays

ChipInspector 2.0 is based on a new client platform and can be installed and executed in parallel to ChipInspector 1.x.

November 2007: ChipInspector Release 1.4

New or enhanced features compared to Release 1.3.5:

• In addition to Affymetrix microarrays, the following chip types are recognized:
  • Agilent Chips
    • Agilent Human Promoter
    • Agilent Whole Human Genome
    • Agilent Mouse Promoter
    • Agilent Whole Mouse Genome
  • Illumina BeadChips
    • Illumina Human Expression BeadChip V 2.0
    • Illumina Mouse Expression BeadChip V 1.1
• Additional Affymetrix chips supported:
  • Affymetrix Exon Arrays
    • Mouse Gene 1.0 ST
    • Rat Gene 1.0 ST
  • Affymetrix Tiling Arrays
    • Arabidopsis Tiling 1.0 R and F
    • Chromosome 21/22 1.0 R and F
    • Chromosome 21/22 2.0 R and F
    • Drosophila Tiling 1.0 R
    • ENCODE01_4x R and F
    • ENCODE 2.0 R and F
    • Human Tiling 1.0 R
    • Human Tiling 2.0 R
    • Mouse Tiling 2.0R v2
  • Affymetrix Expression Arrays
    • 500K_Sty
    • 500K_Nsp

June 2007: ChipInspector Release 1.3.5

New or enhanced features compared to Release 1.3:

• Probe annotation is based on ElDorado 5/2007.
• Position-based analysis allows
  • export of significant regions,
  • transcription factor binding site analysis

April 2007: ChipInspector Release 1.3

New or enhanced features compared to Release 1.2:

• 38 Affymetrix chips supported, including Human Gene 1.0 ST Array.
• AGCC (Affymetrix GeneChip Command Console) compliant files supported.
• Unbiased (position-based) view on tiling array data.