SolexaQA
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Application data |
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| Created by | Murray P. Cox, Daniel A. Peterson, Patrick J. Biggs |
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| Principal bioinformatics method(s) | Sequencing quality control, Sequence trimming |
| Technology | Illumina, 454 |
| Created at | Massey University Palmerston North, New Zealand |
| Maintained? | Yes |
| Input format(s) | FASTQ |
| Output format(s) | FASTQ |
| Software features | Quality Processing Algorithm, Runtime Speed |
| Programming language(s) | Perl, R |
| Licence | GPLv3 |
| Operating system(s) | Mac OS X, UNIX |
Summary: User-friendly software package designed to generate detailed statistics and at-a-glance graphics of sequence data quality both quickly and in an automated fashion. This package contains associated software to trim sequences dynamically using the quality scores of bases within individual reads.
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Description
SolexaQA is a Perl-based software package that calculates quality statistics and creates visual representations of data quality from FASTQ files generated by Illumina second-generation sequencing technology ("Solexa").
This package also contains DynamicTrim, which trims each sequence of a FASTQ file individually to the longest contiguous read segment for which the quality score at each base is greater than a user-supplied quality cutoff, and LengthSort, which sorts dynamically trimmed reads into subset files based on a user-defined length cutoff.
All three programs can handle paired-end data.
454 support is experimental.
Links
References
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| Web Search | Wiki Sites | Scientific |
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