Re: [Mapass-help] The new function sol2sanger seems not valid

[Heng Li <lh...@gm...>]

Hi,

What are the read sequences you got from Solexa pipeline? So far as I =20=

know, the s_?_sequence.txt is also a fastq file. The only difference =20
is in this file, qualities are scaled different from mapass' fastq. =20
Actually, I have never seen a file formated in that way. The correct =20
file should be:

@USI-EAS6_2:2:1:611:882
GTAAAACGACGGCCAGTTTTGTGTATCATAGAT
+
???>,04?.???+(something similar.)

FASTQ is the standard input file format for several assemblers.

Heng


On 18 Jun 2007, at 07:03, Liu Tao wrote:

>
>  Hi, Heng:
>
>      I just found the new release of mapass2 (0.4.1) and try to use =20=

> the new feature
>  to covert the s_2_sequence.txt to sanger fastq. But the result =20
> file is empty without
>  any error report. Do I use the correct format of s_2_sequence.txt? =20=

> One line in the
>  file is list in the following:
>
> USI-EAS6_2:2:1:611:882:GTAAAACGACGGCCAGTTTTGTGTATCATAGAT:40 40 40 =20
> 39 11 15 19 40 13 40 40 40 10 16 7 34 9 23 28 29 22 15 27 18 4 23 6 =20=

> 1 12 1 7 -2 10
>
>  Is it the same with your request format?
>
>  Best Regards!
>  Liu Tao.
>
>
>
>
> 150 =E4=B8=87 =E4=BA=BA =E5=90=8C =E6=97=B6 =E5=9C=A8 =E7=8E=A9 =E7=9A=84=
 =E7=BD=91 =E6=B8=B8=EF=BC=8C=E4=BD=A0 =E4=B8=8D =E8=AF=95 =E8=AF=95 =E5=90=
=97 =EF=BC=9F
> ----------------------------------------------------------------------=20=

> ---
> This SF.net email is sponsored by DB2 Express
> Download DB2 Express C - the FREE version of DB2 express and take
> control of your XML. No limits. Just data. Click to get it now.
> http://sourceforge.net/powerbar/db2/=20
> _______________________________________________
> Mapass-help mailing list
> Map...@li...
> https://lists.sourceforge.net/lists/listinfo/mapass-help