Question: Importance of having same sequence lengths for metagenomic analysis
gravatar for evoBio
20 months ago by
evoBio50 wrote:

I have a set of shotgun metagenomic fastq files of varying quality. Is it a good idea to have them all trimmed at the same length? Or is it okay to trim them at different lengths based on the quality of each individual file?

If I trim them all at same length, that length would be based on the file with the lowest quality i.e. the file which is going to get trimmed the most. Obviously, this is not ideal as I would loose a lot of data in other files that are of higher quality.

Downstream processing would involve assembling the reads into scaffolds.

next-gen assembly sequence • 251 views
ADD COMMENTlink written 20 months ago by evoBio50
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