SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
SAM/BAM format to wiggle format pinki999 Bioinformatics 19 08-12-2015 01:35 AM
How to convert BED format to SAM/BAM? seq_newbie Bioinformatics 1 06-23-2011 09:11 AM
can mapview format convert to map format of MAQ chenw Illumina/Solexa 4 07-25-2009 12:28 AM
Help convert maq map format to eland format hard998 Bioinformatics 0 07-20-2009 08:37 PM
Convert MAQ,SOAP alignment result to ACE format baohua100 Bioinformatics 0 03-02-2009 02:01 AM

Reply
 
Thread Tools
Old 05-16-2011, 08:47 PM   #1
andylai
Junior Member
 
Location: Australia

Join Date: Apr 2010
Posts: 6
Default Looking process to convert gff3 format into ace format or sam format

Is there any application can convert gff3 file and related fasta files into ace file or sam file? I dont want to reinvent the wheel.
andylai is offline   Reply With Quote
Old 05-17-2011, 03:09 AM   #2
maubp
Peter (Biopython etc)
 
Location: Dundee, Scotland, UK

Join Date: Jul 2009
Posts: 1,543
Default

I don't understand what you want to do - going from GFF3 to ACE or SAM makes no sense.

You store annotation in GFF3 files (e.g. there is a gene at this location), but neither ACE nor SAM hold that kind of annotation (they are assembly/mapping files, e.g. this read mapped to this contig at this location).
maubp is offline   Reply With Quote
Reply

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 11:29 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO