Calculating read lengths - SOLiD

naluru · 01-13-2011, 07:33 PM

I am working with SOLiD data and have trimmed reads. I am trying to calculate the length of the reads and their number. I have seen several publications where they have shown these details.

My question is, do you calculate them using linux commands? or is there any other efficient way to do it. Any hints will be highly appreciated.

Thank you

colindaven · 01-26-2011, 05:57 AM

If you have base space fasta files have a look at the tool Galaxy online. There are tonnes of other tools which should do this for you. R may also be useful for you.

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01-13-2011, 07:33 PM	#1
naluru Member Location: Woods Hole, Massachusetts Join Date: Jul 2010 Posts: 16	Calculating read lengths - SOLiD I am working with SOLiD data and have trimmed reads. I am trying to calculate the length of the reads and their number. I have seen several publications where they have shown these details. My question is, do you calculate them using linux commands? or is there any other efficient way to do it. Any hints will be highly appreciated. Thank you

01-26-2011, 05:57 AM	#2
colindaven Senior Member Location: Germany Join Date: Oct 2008 Posts: 415	If you have base space fasta files have a look at the tool Galaxy online. There are tonnes of other tools which should do this for you. R may also be useful for you.