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ascagenes [2010/03/09 13:18]
mjnueda
ascagenes [2014/05/12 12:37]
jcarbonell
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 Example:\\ Example:\\
 |Name|Array1|Array2|Array3|Array4|Array5|Array6|Array7|Array8|Array9|…| |Name|Array1|Array2|Array3|Array4|Array5|Array6|Array7|Array8|Array9|…|
-|gene1|0.5|0.2|0.7|1.3|1.4|1.0|2.1|2.4|2.6|….+|gene1|0.5|0.2|0.7|1.3|1.4|1.0|2.1|2.4|2.6|…|
 |gene2|0.5|0.3|0.4|0.3|0.4|0.1|0.1|0.4|0.5|…| |gene2|0.5|0.3|0.4|0.3|0.4|0.1|0.1|0.4|0.5|…|
 |...|...|...|...|...|...|...|...|...|...|…| |...|...|...|...|...|...|...|...|...|...|…|
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    * //​Variability threshold for component selection//:​ Criterion for selection of principal components. With "​average",​ components are selected that explain more than the average component variability,​ calculated as total data variability divided by the rank of the matrix associated to the factor. Also a fixed value for percentage of explained variability can be indicated such as 0.2, 0.4, 0.5, 0.7, 0.8...\\    * //​Variability threshold for component selection//:​ Criterion for selection of principal components. With "​average",​ components are selected that explain more than the average component variability,​ calculated as total data variability divided by the rank of the matrix associated to the factor. Also a fixed value for percentage of explained variability can be indicated such as 0.2, 0.4, 0.5, 0.7, 0.8...\\
    * //Criterion for gene selection//​. Strategy for selection of genes based on SPE and leverage values. Can be either ​    * //Criterion for gene selection//​. Strategy for selection of genes based on SPE and leverage values. Can be either ​
-       * //​Resampling//:​ where null Leverage distribution is created by permuting columns of expression data and genes are selected at the "​alpha"​ percentile of the null distribution and SPE cutoff is computed by using an approximation to a weighted chi-squared distribution [[references|[2]]]. +       * //​Resampling//:​ where null Leverage distribution is created by permuting columns of expression data and genes are selected at the "​alpha"​ percentile of the null distribution and SPE cutoff is computed by using an approximation to a weighted chi-squared distribution [[references|[2]]]. 
-       * //minAS//: where a density function is calculated on the data and genes are selected on a local minimum basis. +       * //minAS//: where a density function is calculated on the data and genes are selected on a local minimum basis [[references|[7]]]
-       * //Gamma//: where a gamma distribution is adjusted to the distributions of SPE and leverage values, and genes are selected at the "​alpha"​ percentile of the gamma distribution. ​+       * //Gamma//: where a gamma distribution is adjusted to the distributions of SPE and leverage values, and genes are selected at the "​alpha"​ percentile of the gamma distribution ​[[references|[7]]]
                
        
 \\ \\
  
ascagenes.txt · Last modified: 2014/05/12 12:37 by jcarbonell
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