Table 1 A feature comparison of AfterQC with existing tools. From the table we can find that AfterQC is versatile on common quality control and data filtering tasks, and offers novel features not implemented by other tools before
From: AfterQC: automatic filtering, trimming, error removing and quality control for fastq data
| Â | FastQC | Trimmomatic | Cutadapt | AfterQC |
|---|---|---|---|---|
Quality Control | Rich functions | Few function | Few function | Rich functions |
Auto Trimming | None | Read by read | Read by read | Global Trimming |
Cutting adapter | None | Single-end/pair-end | Single-end/pair-end | Pair-end only |
PolyX filtering | None | None | None | Supported |
Figure plotting | Static | Static | Static | Interactive |
Overlap analysis | None | Cutting adapter only | None | Supported with error correction |
Sequence error profiling | None | None | None | Supported |
Bubble detection | None | None | None | Supported |
Programming Language | Java | Java | Python | Python, C |
Speed | Fast | Fast | Fast | Fast only for single-end |