format indelse file MAQ

katarina · 03-25-2010, 02:52 AM

Hi,

I tried to find information about the meaning of the different columns in the indelse file from MAQ shown below:

canFam2_chr11:67458971-67586210 795 0 10 2 6 -2

Hope someone can help?

saima · 03-25-2010, 03:18 AM

u can see it in maq reference manual.

maq indelsoa

The output is also TAB delimited with each line consisting of chromosome, approximate coordinate, length of the abnormal region, number of reads mapped across the position, number of reads on the left-hand side of the position and number of reads on the right-hand side. The last column can be ignored.

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03-25-2010, 02:52 AM	#1
katarina Junior Member Location: Sweden, Uppsala Join Date: Jun 2009 Posts: 1	format indelse file MAQ Hi, I tried to find information about the meaning of the different columns in the indelse file from MAQ shown below: canFam2_chr11:67458971-67586210 795 0 10 2 6 -2 Hope someone can help?

03-25-2010, 03:18 AM	#2
saima Member Location: sweden Join Date: Feb 2010 Posts: 15	u can see it in maq reference manual. maq indelsoa The output is also TAB delimited with each line consisting of chromosome, approximate coordinate, length of the abnormal region, number of reads mapped across the position, number of reads on the left-hand side of the position and number of reads on the right-hand side. The last column can be ignored.