Man pages for aliafdz/QApckg
Quality assessment for Miseq data derived from viral sequencing
| conshaplotypes | Generate consensus haplotypes |
| demultiplexMID | Split reads by MID sequence |
| demultiplexprimer | Trim specific primer sequences |
| executeFLASH | Run FLASH to extend R1 and R2 reads. |
| FiltbyQ30 | Filter haplotypes by Q30 |
| GblYield | Compute global yield by step |
| mclapply.hack | Execution of parallel:mclapply() on Windows machines |
| PlotInDels | Check for insertions and deletions in samples |
| PoolQCbyPos | Evaluate QC by position |
| PoolQCbyRead | Evaluate QC by read |
| primermatch | Identfication of primer specific sequences |
| QCplot | QC plot by read position |
| QCscores | Compute Phred scores by position or by read |
| R1R2toFLASH | Run FLASH to extend paired-end reads and generate report... |
| SaveHaplotypes | Save consensus haplotypes after sorting by mutation and... |
