Hi All,
My collaborators are interested in detecting SNPs in some cancer samples. Exome sequencing seems to be a good start but we have not much knowledge about exome seq and analysis. It will be appreciated if you could give some advice on the following questions:
1) Shall we use Illumina or SOLiD platform? We would like to use the one with better sequencing QUALITY.
2) What is the appropriate read length we shall use? The larger the better?
3) I am not sure if paired-end information is useful for SNP detection but I guess we had better use paired-end.
4)Could you recommend a good software if we want to identify potential SVs using the exome seq data?
Thank you very much.
My collaborators are interested in detecting SNPs in some cancer samples. Exome sequencing seems to be a good start but we have not much knowledge about exome seq and analysis. It will be appreciated if you could give some advice on the following questions:
1) Shall we use Illumina or SOLiD platform? We would like to use the one with better sequencing QUALITY.
2) What is the appropriate read length we shall use? The larger the better?
3) I am not sure if paired-end information is useful for SNP detection but I guess we had better use paired-end.
4)Could you recommend a good software if we want to identify potential SVs using the exome seq data?
Thank you very much.
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