Package index
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assign_splice_sites() - Assign intron donor and acceptor splice sites consensus
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calculate_gc_content() - Calculate GC Content of Genomic Features
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classify_exons() - Classify Exons by Their Relative Transcript Position
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compare_release() - Compare Annotation Counts Between Two GENCODE Releases
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df_to_fasta() - Convert Data Frame to FASTA File
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eliminate_redundant_elements() - Eliminate Redundant Genomic Elements
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extract_cds_sequences() - Extract Coding Sequences (CDS) from GTF Annotations
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extract_element_by_strand() - Extract Genomic Elements by Strand
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extract_introns() - Extract Intron Coordinates from GENCODE Annotations
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extract_single_exon() - Identify Single-Exon Genes/Transcripts in GENCODE Data
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extract_ss_motif() - Extract Splice Site Motifs for MaxEntScan Analysis (5' or 3')
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find_cryptic_splice_sites() - Identify Potential Cryptic Splice Sites.
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get_gff3() - Download GFF3 File from the GENCODE Database
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get_gtf() - Download GTF File from the GENCODE Database
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get_latest_release() - Get the Latest Gencode Release Dynamically
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load_file() - Load a GTF or GFF3 file from GENCODE as a data frame.
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spliced_trans_length() - Calculate Spliced Transcript Lengths
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stat_summary() - Generate Summary Statistics for Genomic Elements
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tiny_example_gtf_files - Tiny example GTF files