|
|
|
|
|||||||
Similar Threads
|
||||
| Thread | Thread Starter | Forum | Replies | Last Post |
| Raw read counts for RNAseq | biofreak | Introductions | 13 | 01-16-2013 06:28 AM |
| Digital Gene Expression - raw read counts | tdoniger | RNA Sequencing | 0 | 02-29-2012 03:00 AM |
| How can one get raw read counts from RPKM values | gen2prot | General | 6 | 06-24-2011 12:08 PM |
| Raw read counts for RNAseq | biofreak | RNA Sequencing | 2 | 06-15-2011 06:56 AM |
| How to convert cufflinks output to raw counts | jebe | RNA Sequencing | 0 | 01-26-2010 12:29 PM |
 |
|
|
Thread Tools |
04-12-2012, 11:13 AM
|
#1 |
|
Member
Location: USA Join Date: Jun 2011
Posts: 44
|
Raw read counts per Exon
How do I obtain from the SAM/BAM file raw read counts per exon and not the gene?
thanks. |
|
|
|
04-13-2012, 07:08 AM
|
#2 |
|
Senior Member
Location: Kansas City Join Date: Mar 2008
Posts: 197
|
If you make a bed file of exons, you can use bedtools coverageBed to tally counts per exon.
|
|
|
|
|
04-17-2012, 08:24 AM
|
#3 |
|
Member
Location: USA Join Date: Jun 2011
Posts: 44
|
thanks. How do I obtain exon.bed for rat?
|
|
|
|
|
05-03-2012, 11:29 AM
|
#4 |
|
Senior Member
Location: Kansas City Join Date: Mar 2008
Posts: 197
|
I'm guessing you could get the info from ensembl biomart. (structures, exon)
|
|
|
|
|
| Thread Tools | |
|
|
