Man pages for Rsubread
Subread sequence alignment for R

alignAlign sequence reads to a reference genome via seed-and-vote
atgcContentCalculate percentages of nucletodies A, T, G and C in a...
buildindexBuild index for a reference genome
createAnnotationFileCreate an annotation file from a GRanges object, suitable for...
detectionCallDetermine detection p values for each gene in an RNA-seq...
detectionCallAnnotationGenerate annotation data used for calculating detection p...
exactSNPexactSNP - an accurate and efficient SNP caller
featureCountsfeatureCounts: a general-purpose read summarization function
findCommonVariantsFinding the common variants among all input VCF files
getInBuiltAnnotationRetrieve in-built annotations provided by featureCounts...
processExonsObtain chromosomal coordiates of each exon using NCBI...
promoterRegionsGenerate annotation for promoter region of genes
propmappedCalculate the proportion of mapped reads/fragments in SAM/BAM...
qualityScoresExtract quality score data in a sequencing read dataset
removeDupReadsRemove sequencing reads which are mapped to identical...
repairRe-order paired-end reads to place reads from the same pair...
RsubreadUsersGuideView Rsubread Users Guide
sam2bedConvert a SAM format file to a BED format file
txUniqueCount number of bases unique to each transcript
Rsubread documentation built on July 16, 2017, 2:01 a.m.