How big is the data from one lane of solexa?

tujchl · 11-10-2009, 06:30 PM

hi everyone:

Recently I use solexa to do studies on CHIP-SEQ. and I download some rawdatas from GEO to practice for I am new to solexa. and the downloaded datas are 150M on average, but yesterday my technician who actually do the solexa experimnet told me that rawdata from one lane is about 1GB!, could you please tell the difference between those two things? thanks in advance

simonandrews · 11-11-2009, 01:56 AM

It depends on what level of output you're talking about and whether or not it's compressed.

Quickly looking at one lane of a recent 36bp single end run which generated ~20 million sequences the files sizes are:

FastQ sequence file 2.8GB

Raw mapped sequence file (export) 3.9GB

Filtered mapped sequence file (sorted) 2.9GB

Intensities 470MB

Raw Images 120GB

All of these are uncompressed sizes and many of these files will compress well (probably 60-70% smaller).

tujchl · 11-11-2009, 06:04 PM

thank you simonandrews
the files which I talk are both fastq-formated uncompressed txt file, I think the downloaded file would be processed in advance

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11-10-2009, 06:30 PM	#1
tujchl Member Location: BEIJING, CHINA Join Date: Sep 2009 Posts: 74	How big is the data from one lane of solexa? hi everyone: Recently I use solexa to do studies on CHIP-SEQ. and I download some rawdatas from GEO to practice for I am new to solexa. and the downloaded datas are 150M on average, but yesterday my technician who actually do the solexa experimnet told me that rawdata from one lane is about 1GB!, could you please tell the difference between those two things? thanks in advance

11-11-2009, 01:56 AM	#2
simonandrews Simon Andrews Location: Babraham Inst, Cambridge, UK Join Date: May 2009 Posts: 871	It depends on what level of output you're talking about and whether or not it's compressed. Quickly looking at one lane of a recent 36bp single end run which generated ~20 million sequences the files sizes are: FastQ sequence file 2.8GB Raw mapped sequence file (export) 3.9GB Filtered mapped sequence file (sorted) 2.9GB Intensities 470MB Raw Images 120GB All of these are uncompressed sizes and many of these files will compress well (probably 60-70% smaller).

11-11-2009, 06:04 PM	#3
tujchl Member Location: BEIJING, CHINA Join Date: Sep 2009 Posts: 74	thank you simonandrews the files which I talk are both fastq-formated uncompressed txt file, I think the downloaded file would be processed in advance