Suggestion to allow 20mers

[MikeAxtell]

Hi again, in using SEED to collapse small RNA-seq data from plants, it would be useful if 20 nt reads were allowed as input. There are a few well-known microRNAs that are 20 nts long (for example, miR156). The ideal size range, if the 5nt window of read sizes is key, would be 20-24 nts for most plant small RNA / microRNA data.

Thanks for considering!

[baoe]

Thanks. We will consider extending the seed length values.

Bao

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From: Mike Axtell [notifications@github.com]
Sent: Friday, June 10, 2016 5:44 AM
To: baoe/SEED
Subject: [baoe/SEED] Suggestion to allow 20mers (#2)

Hi again, in using SEED to collapse small RNA-seq data from plants, it would be useful if 20 nt reads were allowed as input. There are a few well-known microRNAs that are 20 nts long (for example, miR156). The ideal size range, if the 5nt window of read sizes is key, would be 20-24 nts for most plant small RNA / microRNA data.

Thanks for considering!

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[MikeAxtell]

Thanks

On Fri, Jun 10, 2016 at 11:09 AM, Bao notifications@github.com wrote:

Thanks. We will consider extending the seed length values.

Bao

---

From: Mike Axtell [notifications@github.com]
Sent: Friday, June 10, 2016 5:44 AM
To: baoe/SEED
Subject: [baoe/SEED] Suggestion to allow 20mers (#2)

Hi again, in using SEED to collapse small RNA-seq data from plants, it
would be useful if 20 nt reads were allowed as input. There are a few
well-known microRNAs that are 20 nts long (for example, miR156). The ideal
size range, if the 5nt window of read sizes is key, would be 20-24 nts for
most plant small RNA / microRNA data.

Thanks for considering!

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Michael J. Axtell, Ph.D.
Associate Professor
Dept. of Biology
Penn State University
http://sites.psu.edu/axtell
Twitter: @MikeAxtell