Finds motifs using a wide variety of discovery programs like BioProspector, MotifSampler, GLAM, AlignACE, MotifRegressor, etc. Displays the information in a graphical user interface.
Tmod is developed for the users of Windows operating systems, and has an easy-to-use graphical user interface (GUI). Tmod integrates twelve motif discovery programs: AlignACE (Roth et al., 1998), BioProspector (Liu et al., 2001), Consensus (Hertz and Stormo, 1999), MEME (Bailey and Elkan, 1994), MDscan (Liu et al., 2002), MotifSampler(Thijs, et al., 2001; Thijs, et al., 2002), SeSiMCMC (Favorov, et al., 2005), GLAM (Frith, et al., 2004), MotifRegressor(Conlon, et al., 2003), YMF(Sinha and Tompa, 2003), Weeder (Pavesi, et al., 2001; Pavesi, et al., 2004; Pavesi, et al., 2004) and Gibbs Motif Sampler (Liu, et al., 1995; Newberg, et al., 2007; Thompson, et al., 2004; Thompson, et al., 2003; Thompson, et al., 2007). The motif finding algorithms included in Tmod have all been widely cited and proved excellent methods in the research field of motif discovery.
Tmod is developed in C++ with the support of MFC and Cygwin. and compiled on Windows platform and can be executed on Windows 7/Windows Vista/Windows XP/Windows 2000 system. The minimum memory (RAM) requirement of Tmod is 256MB.
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