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2.9 NMt2feat - Program Arguments

Short Long Description
–start Look at the 5'end of the feature
–end Look at the 3'end of the feature
–upstream Look only at the upstream region of the feature boundary
–matrix Output the matrix of profiles
-i –input The input tiling dataset file (NMtdb)
-o –output The stem name of the output file(s)
-f –feature The feature file in gff format (version 3)
-l –feature-id The file listing the feature types to focus on and/or directly the name of a feature type
-w –window The window size (in bp) around the each feature boundary
-n –nclass The number of bins into which the upstream/downstream region will be split
-c –non-zero-col Remove features for which the corresponding column in the dataset indicates no signal (see –zero-value)
-z –zero-value The minimal value to consider the intensity as an actual signal to take into account