SeqControl 1.0.3 – Process Control for DNA Sequencing

SeqControl 1.0.3

:: DESCRIPTION

SeqControl is a set of Perl and R scripts designed to assess the quality of sequencing data using multiple quality metrics.

::DEVELOPER

Boutros Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • R
  • Perl

:: DOWNLOAD

 SeqControl

:: MORE INFORMATION

Citation:

SeqControl: process control for DNA sequencing.
Chong LC, Albuquerque MA, Harding NJ, Caloian C, Chan-Seng-Yue M, de Borja R, Fraser M, Denroche RE, Beck TA, van der Kwast T, Bristow RG, McPherson JD, Boutros PC.
Nat Methods. 2014 Oct;11(10):1071-5. doi: 10.1038/nmeth.3094

SIBASS 1.4 – Association Test using Siblings as Controls

SIBASS 1.4

:: DESCRIPTION

SIBASSOC is a program for carrying out association studies using siblings as controls.

::DEVELOPER

Dave Curtis

:: SCREENSHOTS

Command Line

:: REQUIREMENTS

  • Windows

:: DOWNLOAD

SIBASS

:: MORE INFORMATION

Citation:

Curtis, 1997.
Use of siblings as controls in case-control association studies.
Ann Hum Genet, 61.

GSCA / cGSCA – Gene Set Control Analysis

GSCA / cGSCA

:: DESCRIPTION

GSCA is a new computational framework for linking gene sets with transcriptional control.

C-GSCA tool performs a hierarchical clustering of over-represented samples found by GSCA.

::DEVELOPER

GSCA team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Server

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Exp Hematol. 2013 Apr;41(4):354-66.e14. doi: 10.1016/j.exphem.2012.11.008. Epub 2012 Dec 4.
Gene set control analysis predicts hematopoietic control mechanisms from genome-wide transcription factor binding data.
Joshi A1, Hannah R, Diamanti E, Göttgens B.

SDMinP – Control the Family Wise Error Rate using Step-down MinP Adjusted

SDMinP

:: DESCRIPTION

SDMinP is an easy-to-use program for fast calculation of empirical and adjusted p-values for correlated and uncorrelated hypotheses in multiple testing experiments.

::DEVELOPER

Division of Cancer Epidemiology, German Cancer Research Center

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 SDMinP

:: MORE INFORMATION

Citation

Bioinformatics. 2005 Jul 15;21(14):3183-4. Epub 2005 May 6.
SDMinP: a program to control the family wise error rate using step-down minP adjusted P-values.
Obreiter M, Fischer C, Chang-Claude J, Beckmann L.

ArrayMaker 2.6 – Provides Robotic Control of Microarrayer Robots

ArrayMaker 2.6

:: DESCRIPTION

ArrayMaker provides high performance robotic control of microarrayer robots with an incredibly intuitive, easy to use interface. ArrayMaker is optimized for use with the new generation of ultra fast linear servo driven arrayers, yet it is backwards compatible with the original MGuide style of ball-screw driven arrayers.

Features highly flexible configuration options, orange packing, replicate spots, replicate arrays, multiple slide and plate orientations.

::DEVELOPER

Derisi Lab

:: SCREENSHOTS

:: REQUIREMENTS

Windows 98/2000/NT/XP, Galil DMC-1832 Series PCI Bus Controller Card

:: DOWNLOAD

ArrayMaker 2.6, File Size:2,494K

:: MORE INFORMATION

This version has a new parameter in the “motor.cfg” file for a separate acceleration value for the x-stage during test prints. This value should be entered on the 19th line of your “motor.cfg” file, inserted between the “HPrintZ” line and the “SpeedX” line.