Question: (Closed) Length of reads in a RNAseq experiment
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Carlos Andrés Caicedo • 0 wrote:
Should all the reads of my experiment be of the same length if I am going to perform a de novo assembly?
The raw data contained reads of the same length but after the trimming process by quality some of them are reduced. I would like to know if there are some effect in the downstream analysis with this reads. (The majority of the reads remain of the same length and only a few reads have been trimmed)
Thanks
Carlos Andrés.
Which tools do you plan to use?
I am going to use Rockhopper.
I am not familiar with that tool and I did not find it wrapped for Galaxy. It is probably best to ask this question of the tool developers (http://cs.wellesley.edu/~btjaden/Rockhopper/) or on a more general bioinformatics forum (https://www.biostars.org) for the best feedback/advice from those that use it.
I am going to close this question out as non-Galaxy related post.
Hello dear Jennifer Hillman-Jackson
I have already made the question in Biostar
I thank you for your help and I apologize for the mistake.
Cheers!
Hello candres.caicedo!
We believe that this post does not fit the main topic of this site.
Not about Galaxy
For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.
If you disagree please tell us why in a reply below, we'll be happy to talk about it.
Cheers!