Estimating Error Rate In Sequencing Data

Question

[Prakki Rama]

Hi all,

May i know your ideas how the error rate is estimated for the sequencing data? For eg: they say for the PacBio data the error rate ranges from 15-20%. How do they find it? Any specific programs estimate this? Your answers would be helpful. Thank you.

[Sudeep]

See Evaluation Of High Throughput Sequencing Error Rates ?

Answer 1

[ThePresident]

I'm not sure to answer you question, but I know that you can use FastQC for estimation of the quality of one sequenced library. For exemple:

curl -O http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.10.1.zip
unzip fastqc_v0.10.1.zip
cd FastQC
chmod +x fastqc
fastqc FileName.fastq