Cryptic Transcription Analysis in Yeast


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Documentation for package ‘yCrypticRNAs’ version 0.99.2

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yCrypticRNAs-package Cryptic transcription analysis in yeast.
annotations Saccharomyce cerevisiae genes annotations.
annotationsSet Create a geneAnnotation object.
as.annotationsSet Convert a data.table into a geneAnnotation object.
bam_to_reads Convert BAM files into BED files containing the reads overlaping the specified annotations.
coverage Report coverage.
coverageDataSet Create a CoverageDataSet
enrichment_score 3' enrichment score
gene_coverage Compute coverage data for a specific gene.
genome_wide_scores Genome-wide cryptic scores.
initiation_sites Cryptic transcription start sites (cTSS)
introns Saccharomyce cerevisiae introns annotations.
ratio_score 3'/5' ratio score
rna_seq_signals Coverage dataset for FLO8, CDC14 and SNC1 gene.
yCrypticRNAs Cryptic transcription analysis in yeast.
yer109c Coverage dataset for FLO8 gene.
zscore_score Z score