Hello,
The last line of the report you sent suggests that the file has format
problems. I read through your other email and noticed that a few steps
were inserted, perhaps because they were needed. However, the line noted
here is not in BED format:
On 10/4/11 12:06 PM, shamsher jagat wrote:
Thanks Jen,
My problem is I have ChIP-seq data where I have one Bed
file with coordinates-
chr1 724027 724226 61PDWAAXX100706:4:19:6952:18071 -
Then there is wig file.? Is it possible that thsi data can be analyzed in
Galaxy/ Cistrome. I tried to use Cistrome which gav eme
Hello,
It is possible to go from SAM/BAM to BED, but not the reverse. SAM/BAM
files contain the actual sequence data associated with the original
aligned read. BED files only have the reference genome location of the
alignment (no read sequence).
It is possible to extract genomic sequence
Is it possible to use some tool in Galaxy to convert BED file to Bam/ sam
file. In other word do we have Bed tools or other option in Galaxy
Thanks
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