| alignment_depth | Plot alignment depth. |
| cigar_string | Return the CIGAR string from a 'bamAlign' object. |
| consensus_table | Generate a consensus table between a BAM alignment and a... |
| multiplot | Multiple plot function |
| plot_alignment_quality | Plot alignment quality. |
| porequal | Assessing the quality of high-throughput multiple sequence... |
| read_fasta | Read a fasta file. |
| sam2bam | Convert a SAM file to a BAM file. |
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