Function reference
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annotate_pfam() - Annotate proteins sequences with PFAM domains
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classification_scheme - Data frame of TF family classification scheme
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classify_tfs() - Identify TFs and classify them in families
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get_tf_counts() - Get TF frequencies for each species as a SummarizedExperiment object
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gsu - Protein sequences of the algae species Galdieria sulphuraria
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gsu_annotation - Domain annotation for the algae species Galdieria sulphuraria
The data set was created using the funcion
annotate_pfam()in local mode.
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gsu_families - TFs families of the algae species Galdieria sulphuraria
The data set was created using the funcion
classify_tfs().
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hmmer_is_installed() - Check if HMMER is installed
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tf_counts - TF counts per family in 4 simulated species