BinCounts | Get mean read coverage from 5’ to 3’ across the most highly... |
CreateSpliceJunctionTable | Create a table of unique splice junction expression per tab... |
GetAlignmentStatistics | Get a summary of alignment statistics for an aligned bam file... |
GetBedGraphRefSeqOverlaps | Get overlaps using GenomicRanges findOverlaps for a bedgraph... |
GetCountsPerRegion | Count the number of reads that are in a given genomic region. |
GetCoverageMatrix | Get coverage matrix for genes which are highly expressed in... |
GetHtseqSummaryStats | Read and organize htseq *_summary_stats.txt files into one... |
GetNumGenesExpressed | Get the total number of genes expressed per gtf file... |
GetPileUpPerGene | Get read depths per gene as defined by the RSamtools pileup... |
GetrRNAStatistics | Get the total number of rRNA read counts from bam file.... |
GetTranscriptomeCoverage | Calculate a coverage score based on read depth and also gene... |
OverlapEditSites | Overlap bedgraph coverage file (*.bedgraph.gz) with known... |
SummarizeUniqueReads | Get a summary of the unique reads from bam file. Duplicate... |
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