SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
SOAP alignment format convert to SAM/BAM KevinLam Bioinformatics 31 01-10-2018 08:05 PM
Short sequence alignment rboettcher Bioinformatics 9 03-17-2011 02:35 AM
Gapped alignment using SOAP? MattB Bioinformatics 0 11-06-2009 09:28 PM
Convert MAQ,SOAP alignment result to ACE format baohua100 Bioinformatics 0 03-02-2009 01:01 AM
PubMed: PASS: a Program to Align Short Sequences. Newsbot! Bioinformatics 0 02-17-2009 05:00 AM

Reply
 
Thread Tools
Old 07-15-2009, 07:37 PM   #21
allo
Member
 
Location: Davis, CA

Join Date: Jul 2009
Posts: 15
Default

Hi, more SOAP,
The SOAP2 paper states that the new SOAP2 supports several input and output formats:
The output formats include a SOAP tab-delimited
text table, a gzipped text table, a Sequence Alignment/Map (SAM)
format and its binary equivalent (BAM) that is recommended by
the 1000 Genomes Consortium, and a Consed format that fits with
the assembly viewer
.
Does anybody know how to select those formats? I have not been able to find any info on the documentation or web site.
Thanks!!
allo is offline   Reply With Quote
Old 07-15-2009, 07:42 PM   #22
allo
Member
 
Location: Davis, CA

Join Date: Jul 2009
Posts: 15
Default

By the way this is the link to SOAP2 version 2.19
http://soap.genomics.org.cn/soapaligner.html
Cheers!
allo is offline   Reply With Quote
Old 10-26-2009, 01:55 PM   #23
amaer
Member
 
Location: San Diego

Join Date: Oct 2009
Posts: 15
Default

Does SOAP2 perform gapped alignments yet?
amaer 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 01:51 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2019, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO