Clean reads
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Application data |
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| Principal bioinformatics method(s) | Sequence trimming, Sequencing quality control |
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| Created at | COMAV at Universidad Politecnica de Valencia |
| Maintained? | Maybe |
| Programming language(s) | Python |
| Software libraries | franklin |
Summary: clean_reads cleans NGS (Sanger, 454, Illumina and solid) reads.
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Description
clean_reads can trim:
- bad quality regions
- adaptors
- vectors
- regular expresssions.
It also filters out the reads that do not meet a minimum quality criteria based on the sequence length and the mean quality.
It uses several algorithms and third party tools to carry out the cleaning. The third party tools used are: lucy, blast, mdust and trimpoly.
The functionality offered by clean_reads is similar to the cleaning capabilities of the ngs_backbone pipeline.
Links
References
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