|
|
|
|
|||||||
Similar Threads
|
||||
| Thread | Thread Starter | Forum | Replies | Last Post |
| cuffdiff: use merged.gtf from cuffmerge or combined.gtf from cuffcompare? | turnersd | Bioinformatics | 21 | 10-02-2014 04:41 AM |
| merged.gtf or combined .gtf | harshinamdar | Bioinformatics | 0 | 09-29-2011 11:10 PM |
| cuffcompare output combined.gtf question | arrchi | Bioinformatics | 0 | 09-01-2011 09:15 AM |
| ^@ in .combined.gtf from cuffcompare v0.8.4 | glacierbird | Bioinformatics | 2 | 01-14-2011 01:42 PM |
| Why the cufflinks doesn't generate stdou.combined.gtf | cskey | General | 0 | 04-25-2010 10:53 PM |
 |
|
|
Thread Tools |
07-08-2014, 07:49 AM
|
#1 |
|
Member
Location: Istanbul, Turkey Join Date: Oct 2012
Posts: 28
|
cuffcmp.combined.gtf vs. genes.gtf in CuffDiff
Hello all,
When I run CuffDiff with genes.gtf (annotation file I also used in Tophat2 when doing Transcriptome mapping) or cuffcmp.combined.gtf (generated by, cuffcompare -s /path/to/genome_seqs.fa -CG -r genes.gtf genes.gtf), I find different number of significantly differentially expressed genes. Is it normal? If it is which one is more suitable (I am only interested in genes_exp.diff at the output)? |
|
|
|
| Thread Tools | |
|
|
