Difference between revisions of "Quality control of fastq read files"

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The first step of any analysis involving high-throughput sequencing data should consist of assessing the quality of the read data, possibly followed  by the removal of low-quality reads.
 
The first step of any analysis involving high-throughput sequencing data should consist of assessing the quality of the read data, possibly followed  by the removal of low-quality reads.
 
  
 
It is possible to filter sequencing reads using Qiime, but a comprehensive report is not produced in the process. The FastQC program may be used to produce such a report, optionally followed by read filtering using the Trimmomatic program.
 
It is possible to filter sequencing reads using Qiime, but a comprehensive report is not produced in the process. The FastQC program may be used to produce such a report, optionally followed by read filtering using the Trimmomatic program.
  
 
See [https://wiki.uio.no/mn/ibv/bioinfwiki/index.php/RNASeq:_Quality_control here] for an overview.
 
See [https://wiki.uio.no/mn/ibv/bioinfwiki/index.php/RNASeq:_Quality_control here] for an overview.

Latest revision as of 12:57, 24 August 2015

The first step of any analysis involving high-throughput sequencing data should consist of assessing the quality of the read data, possibly followed by the removal of low-quality reads.

It is possible to filter sequencing reads using Qiime, but a comprehensive report is not produced in the process. The FastQC program may be used to produce such a report, optionally followed by read filtering using the Trimmomatic program.

See here for an overview.