estimateVBExpression - estimate expression given precomputed probabilities of (observed) reads alignments

       Estimates expression given precomputed probabilities of (observed) reads' alignments.

              Uses Variational Bayes algorithm to produce parameters for distribution of relative abundances.

       estimateVBExpression - estimate expression given precomputed probabilities of (observed) reads alignments

--help

              Show this help information.

       --optLimit=<limit>

              Optimisation limit in terms of minimal gradient or change of bound. (default: 1e-05)

       --maxIter=<maxIter>

              Maximum number of iterations. (default: 10000)

       -m <optMethod> ,   --method=<optMethod>

              Optimization method (steepest, PR, FR, HS). (default: FR)

       -o <outFilePrefix> ,   --outPrefix=<outFilePrefix>

              Prefix for the output files.

       -O <outputType> ,   --outType=<outputType>

              Output type (theta, RPKM, counts) of the samples sampled from the distribution. (default: theta)

       -P <procN> ,   --procN=<procN>

              Limit the maximum number of threads to be used. (default: 4)

       --samples=<samples>

              Number of samples to be sampled from the distribution.

       -s <seed> ,   --seed=<seed>

              Random initialization seed.

       -t <trInfoFileName> ,   --trInfoFile=<trInfoFileName>

              File containing transcript information. (Necessary for RPKM samples)

       -v ,   --verbose

              Verbose output. (default: Off)

       -V ,   --veryVerbose

              More verbose output, better if output forwarded into file. (default: Off)

estimateVBExpression 0.7.5+dfsg                  September 2021                          ESTIMATEVBEXPRESSION(1)

estimateVBExpression-o<outFilePrefix>  [OPTIONS] [probfile]