.baf 2 BED

JohnK · 04-12-2010, 08:56 AM

Hello,

.baf from BFAST alignment output to .BED format? Thanks.

J

nilshomer · 04-12-2010, 09:55 AM

Quote:

Originally Posted by JohnK

Hello,

.baf from BFAST alignment output to .BED format? Thanks.

J

There are many ways. You can convert the BAF file to the SAM/BAM format using the "bfast postprocess" option, which you should use anyways to prioritize alignments. Then you can write your own program or check out this thread to convert SAM/BAM to BED.

ECO · 04-12-2010, 11:07 AM

I think it's time for a giant table of file formats..."I have" vs "I want"....

JohnK · 04-13-2010, 10:45 AM

Quote:

Originally Posted by ECO

I think it's time for a giant table of file formats..."I have" vs "I want"....

That'd be huge.

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
Bed to BedGraph	ayushraman	Bioinformatics	4	08-20-2015 07:01 AM
Is it possible to convert a SNP.txt to a bed file or get a SNP.bed from samtools?	Ling	Bioinformatics	7	04-02-2015 06:17 AM
Is there a BED file format validator? Does a BED file have to be sorted position?	LauraSmith	Bioinformatics	3	05-21-2013 11:54 AM
Eland to Bed	__sequence	Illumina/Solexa	0	06-08-2011 04:07 AM
Convert from baf to bam files	Mercutio	Bioinformatics	2	12-07-2010 10:45 AM

04-12-2010, 08:56 AM	#1
JohnK Senior Member Location: Los Angeles, China. Join Date: Feb 2010 Posts: 106	.baf 2 BED Hello, .baf from BFAST alignment output to .BED format? Thanks. J

04-12-2010, 11:07 AM	#3
ECO --Site Admin-- Location: SF Bay Area, CA, USA Join Date: Oct 2007 Posts: 1,358	I think it's time for a giant table of file formats..."I have" vs "I want"....