Identification and classification of plant transcription factors

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Documentation for package ‘planttfhunter’ version 1.2.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

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