Resources: Tools

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  1. Colorectal Cancer Incidence Prediction Model

    10 Jun 2008 | Tools | Contributor(s): Eric Sherer, Mohd Rahmad

    Stochastic simulation of polyp and colorectal cancer (CRC) incidence with patient age.

  2. GCxGC-MS Data Classification and Alignment

    11 Jun 2008 | Tools | Contributor(s): Dabao Zhang, Min Zhang, Jason Catlin

    Align and classify GCxGC-MS data

  3. Monte Carlo Simulation for four Colorectal Cancer Incidence Models

    16 Jul 2008 | Tools | Contributor(s): Eric Sherer

    A Monte Carlo Simulator determines the risk of colorectal cancer (CRC) development in a population by calculating multiple, individual patient trajectories.

  4. Workspace

    17 May 2008 | Tools | Contributor(s): Nicholas Kisseberth

    Workspace

  5. Spectrum Deconvolution of LC-MS Data

    05 Sep 2008 | Tools | Contributor(s): Ann Christine Catlin, George Howlett

    Spectral deconvolution differentiates analyte signals from contaminants or instrumental noise, and reduces data dimensionality to benefit downstream statistical analysis.

  6. Peak Alignment of LC-MS Data

    15 Sep 2008 | Tools | Contributor(s): Ann Christine Catlin, George Howlett

    Peak alignment addresses retention time shift by recongnizing and aligning significant peaks; it then uses discrete deconvolutio to align overlapped peaks.

  7. Normalization of Aligned LC-MS Data

    12 Jan 2009 | Tools | Contributor(s): Ann Christine Catlin, George Howlett

    Normalization attempts to quantitatively filter overall peak intensity variations due to experiment errors such as systematic variable injection volumes loaded onto LC-MS.

  8. Significance Testing of Normalized LC-MS Data

    12 Jan 2009 | Tools | Contributor(s): Ann Christine Catlin

    Several statistical significance tests are employed to identify peptide or metabolite peaks that either make significant contributions to the molecular profile of a sample or distinguish a group of samples from others.

  9. Pattern Recognition for Normalized LC-MS Data

    12 Jan 2009 | Tools | Contributor(s): Ann Christine Catlin, George Howlett

    This tool provides principal component analysis (PCA), linear discriminate analysis (LDA), and canonical discriminate analysis (CDA) for data clustering on aligned, normalized LC-MS datasets.

  10. The MACH 1.0 Markov Chain based Haplotyper

    03 Mar 2009 | Tools | Contributor(s): Yanzhu Lin, Guoheng Chen, Ann Christine Catlin

    The MaCH Tool is used to infer missing genotypes in a two step process, where Step 1 estimates the model parameters, and Step 2 uses the parameters estimated in Step 1 -- calibrated to your specific dataset and genotyping platform -- to impute all SNPs.