Table 2

Comparison of HDBStat! with other software packages. All these software packages are still in active development and new functions will undoubtedly be added over time.

HDBStat!

SAM

BRB-Array Tools 3.2.2

TM4


Two color data handling

Common reference and balanced block designs

No

Yes

Yes


Database

No

No

No

Yes


Ratio Statistics

Yes

No

Yes

Yes


Normalization

Yes

Yes

Yes

Yes


Max number of arrays

No limit

255

249

No limit


Discriminate Analysis

No

No

Yes

Yes


ANOVA

Yes

No

Yes

Yes


Bootstrapping

Yes

Yes

Yes

Yes


Non-normal and heteroskedastic data handling

Yes

Yes

Via normalization

Via normalization


Non-parametric statistics

Yes

No

Yes

No


Cluster analysis

No

No

Yes

Yes


FDR (number)

8

1

2

1


Family Wise Error rate corrections

2

0

1

1


Quality Control

Yes

No

No

Yes


Power Analysis

Yes

No

No

No


Automatic report generation

Yes

No

Yes

No


Gene Class testing

No

No

Yes

No


Automatic Annotation

No

Link out

Yes

No


Platform

Single program implemented in Java & available via Java Web Start technology

Microsoft Excel Add-in

Microsoft Excel Add-in

4 separate programs, 3 of which implemented in java & 1 in C++


Trivedi et al. BMC Bioinformatics 2005 6:86   doi:10.1186/1471-2105-6-86

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