Question: difference between tophat2 and tophat for illumina
0
gravatar for ajmaninisha
2.8 years ago by
ajmaninisha30
Canada
ajmaninisha30 wrote:

Hi 

I have paired end read and am confused i should tophat 2 or tophat for illumina. What is the difference between the two. And why should we choose Tophat2 or Tophat for Illumina.

Also, i have genome and annotation file which is in asn file format not in gff format. Will galaxy automatically convert into gff format or readable format accepted by the galaxy.

Kindly advise

tophat2 tophat gtf mapping • 1.1k views
ADD COMMENTlink modified 2.8 years ago by Bjoern Gruening4.8k • written 2.8 years ago by ajmaninisha30
1
gravatar for Bjoern Gruening
2.8 years ago by
Bjoern Gruening4.8k
Germany
Bjoern Gruening4.8k wrote:

Hi,

`Tophat for Illumina` is an older version of Tophat and you should use Tophat2. As far as I know the conversion from ASN and GFF is not straightforward. If you can try to find a GFF or GTF file.

 

Hope this helps,

Bjoern

ADD COMMENTlink written 2.8 years ago by Bjoern Gruening4.8k
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