Sam 2 ace

[jdiezperezj]

Hi everyone,
This is my first post on the list. I would like to know if there is a tool/script ... to convert from SAM format to ACE format.
Cheers.
Javi

[nataliaTS]

SAM/BAM to ...

Hi!!!
I have the same problem. Anyone know how to covert SAM/Bam to other format like ACE???

thanks

[sklages]

At least for ACE,

- convert SAM to BAM using samtools

- use consed for the bam to ace conversion,

Docs say (v22 or greater),
"-Create an ace file from a bam file: consed -bam2Ace
You can make an ace file out of just a targeted region of the
reference sequence or out of the entire reference sequence.
Cigars are shown in consed. By default, shallowerDepth
(below) is included.
"

hth, Sven