Man pages for vsbuffalo/qrqc
Quick Read Quality Control
| basePlot-methods | Plot Base Frequency or Proportion by Position |
| calcKL | Calculate the Kullback-Leibler Divergence Between the k-mer... |
| FASTASummary-class | 'FASTASummary' class representing the summaries of a FASTA... |
| FASTQSummary-class | 'FASTQSummary' class representing the summaries of a FASTQ... |
| gcPlot-methods | Plot GC Content by Position |
| geom_qlinerange | Use Line Segments and Points to Plot Quality Statistics by... |
| getBase-methods | Get a Data Frame of Base Frequency Data from a... |
| getBaseProp-methods | Get a Data Frame of Base Proportion Data from a... |
| getGC-methods | Get a Data Frame of GC Content from a 'SequenceSummary'... |
| getKmer-methods | Get a Data Frame of k-mer Frequency by Position from a... |
| getMCQual-methods | Get a Data Frame of Simulated Qualitied from a 'FASTQSummary'... |
| getQual-methods | Get a Data Frame of Quality Data from a 'FASTQSummary' object |
| getSeqlen-methods | Get a Data Frame of Sequence Lengths from a 'SequenceSummary'... |
| kmerEntropyPlot | Plot Entropy of k-mers by Position |
| kmerKLPlot | Plot K-L Divergence Components for a Subset of k-mers to... |
| list2df | Apply a function to items in list and combine into data frame |
| makeReport | Make an HTML report from a FASTASummary of FASTQSummary... |
| plotBases | Plot Bases by Position |
| plotGC | Plot per Base GC Content by Position |
| plotQuals | Plot a Base Quality Boxplot by Position |
| plotSeqLengths | Plot Histogram of Sequence Lengths |
| qualPlot-methods | Plot a Base Quality Boxplot by Position |
| readSeqFile | Read and Summarize a Sequence (FASTA or FASTQ) File |
| scale_color_dna | Set the color scheme to 'biovizBase"s for DNA |
| scale_color_iupac | Set the color scheme to 'biovizBase"s for IUPAC codes |
| seqlenPlot-methods | Plot a Histogram of Sequence Lengths |
| SequenceSummary-class | 'SequenceSummary' class representing the summaries of a... |
