Man pages for Rsubread
Mapping, quantification and variant analysis of sequencing data
| align | Align Sequence Reads to a Reference Genome via Seed-and-Vote |
| atgcContent | Calculate Percentages of Nucleotides in Reads |
| buildindex | Build Index for a Reference Genome |
| cellCounts | Map and quantify single cell RNA-seq data generated by 10X... |
| detectionCall | Determine Detection P Values for Each Gene in an RNA-seq... |
| detectionCallAnnotation | Generate Annotation Data Used for Calculating Detection P... |
| exactSNP | Accurately and Efficiently call SNPs |
| featureCounts | Count Reads by Genomic Features |
| findCommonVariants | Finding the Common Variants Among All Input VCF Files |
| flattenGTF | Flatten Features in GTF or GFF Annotation Files |
| getInBuiltAnnotation | Retrieve In-Built Annotations |
| processExons | Obtain Chromosomal Coordiates of Each Exon Using NCBI... |
| promoterRegions | Generate Annotation for Promoter Regions of Genes |
| propmapped | Calculate the Proportion of Mapped Reads or Fragments in... |
| qualityScores | Extract Quality Score Data in a Sequencing Read Dataset |
| removeDupReads | Remove Sequencing Reads Mapped to Identical Locations |
| repair | Re-Order Paired-End Reads to Place Reads |
| RsubreadUsersGuide | View Rsubread Users Guide |
| sam2bed | Convert a SAM Format File to a BED File |
| simReads | Generate Simulated Reads from a Set of Transcripts |
| sublong | Align Long Sequence Reads to a Reference Genome via... |
| txUnique | Count Number of Bases Unique to Each Transcript |
