Man pages for mw55309/viRome_legacy
Analysis and visualisation of short-read sequencing data from virus-infection studies
| barplot.bam | Draw/calculate a barplot showing the length distribution of... |
| clip.bam | Deals with soft-clipping encoded in the CIGAR string and... |
| dna.complement | Complement (and reverse) DNA sequence |
| make.pwm | Construct position-weight matrix for subsets of reads from... |
| make.simple.consensus | Make Simple Consensus |
| position.barplot | Plot a barplot of alignments across a genome |
| pwm.heatmap | Draw a heatmap of a position-weight matrix (from 'make.pwm' |
| read.bam | Reads a BAM file using the Rsamtools package and manipulates... |
| read.dist.plot | Plot distances between 5' ends of reads on complementary... |
| sequence.report | Produce a summary of the entire BAM alignment, grouped by... |
| size.position.heatmap | Produce a heatmap of counts from the results of... |
| size.strand.bias.plot | Plot counts of read lengths on + and - strands |
| stacked.barplot | Produce a stacked barplot from the output of... |
| summarise.by.length | Summarise reads mapped by length of the read and position in... |
