Trimming or filtering the data from Solid

[anusha]

Hi ..

I have got the solid csfatsa file and the data has lot of dots in the sample. So i there any way i can trim or filter the Data in Bowtie,Maq or in another tools that you could suggest.
Here the sample of the data.

>1_17_228_F3
T.1002.312..0..001.0001.2....1..1..022..0....00...0
>1_17_469_F3
T.1300.333..0..020.1020.0....0..1..020..3....01...3
>1_17_578_F3
T.1002.321..0..021.0230.0....1..2..122..1....11...2
>1_17_581_F3
T.1002.322..0..021.0011.0....2..1..021..2....20...1
>1_112_1012_F3
T.0300.3330.110021010300000000022130200.31.1.01.0.3
>1_112_1459_F3
T.1002.3201.002000003212002001021200223.10.3.30.2.3
>1_113_39_F3
T.1000.3330.000001000010100000121000220.10.0.01.0.0
>1_113_233_F3
T.1001.3211.012000000110102021021120220.00.0.31.2.0
>1_113_329_F3
T.1300.3330.011220010200000000122130200.01.0.01.0.3
>1_113_835_F3
T.1300.3330.012220010200002022122230202.01.1.01.2.3

Thanks
Anu

[nilshomer]

Hi ..

I have got the solid csfatsa file and the data has lot of dots in the sample. So i there any way i can trim or filter the Data in Bowtie,Maq or in another tools that you could suggest.
Here the sample of the data.

>1_17_228_F3
T.1002.312..0..001.0001.2....1..1..022..0....00...0
>1_17_469_F3
T.1300.333..0..020.1020.0....0..1..020..3....01...3
>1_17_578_F3
T.1002.321..0..021.0230.0....1..2..122..1....11...2
>1_17_581_F3
T.1002.322..0..021.0011.0....2..1..021..2....20...1
>1_112_1012_F3
T.0300.3330.110021010300000000022130200.31.1.01.0.3
>1_112_1459_F3
T.1002.3201.002000003212002001021200223.10.3.30.2.3
>1_113_39_F3
T.1000.3330.000001000010100000121000220.10.0.01.0.0
>1_113_233_F3
T.1001.3211.012000000110102021021120220.00.0.31.2.0
>1_113_329_F3
T.1300.3330.011220010200000000122130200.01.0.01.0.3
>1_113_835_F3
T.1300.3330.012220010200002022122230202.01.1.01.2.3

Thanks
Anu

Duplicate thread of:

http://seqanswers.com/forums/showthread.php?p=12759