Forum: Introductions
04-23-2014, 09:49 PM
|
|
Replies: 18
Views: 4,426
Dear Alejandro,
I would like to know about...
Dear Alejandro,
I would like to know about terminology used while plotting like 'fitted expression', fitted splicing' etc. I could not find the details in DEXSeq vignette.
Could you please point...
|
|
Forum: Introductions
04-14-2014, 09:42 PM
|
|
Replies: 18
Views: 4,426
|
|
Forum: Introductions
04-14-2014, 12:15 AM
|
|
Replies: 18
Views: 4,426
Thank you,
Please find below the response:
...
Thank you,
Please find below the response:
code to plot:
plotDEXSeq(test, "ENSG00000167613")
warning while generating the plot:
Warning message:
In segments(intervals[rango], matr[rango,...
|
|
Forum: Introductions
04-13-2014, 11:12 PM
|
|
Replies: 18
Views: 4,426
|
|
Forum: Introductions
04-06-2014, 09:33 PM
|
|
Replies: 18
Views: 4,426
|
|
Forum: Introductions
03-27-2014, 09:11 PM
|
|
Replies: 18
Views: 4,426
Dear Areyes,
I have tried as suggested....
Dear Areyes,
I have tried as suggested. However, I am getting all NA values for p and p adjusted columns.
I am using the R script below.
#!/usr/bin/env Rscript
library(DEXSeq)
...
|
|
Forum: Introductions
03-25-2014, 03:01 AM
|
|
Replies: 18
Views: 4,426
Thank you Devon,
I understand that I should...
Thank you Devon,
I understand that I should apply this formula while calculating dispersion as well as testing for differential expression:
formula=count ~ sample+group*exon+condition
Regards,...
|
|
Forum: Introductions
03-24-2014, 02:02 AM
|
|
Replies: 18
Views: 4,426
|
|
Forum: Introductions
03-14-2014, 04:17 AM
|
|
Replies: 18
Views: 4,426
|
|
Forum: Introductions
03-10-2014, 03:05 AM
|
|
Replies: 18
Views: 4,426
|
|
Forum: Introductions
03-09-2014, 11:21 PM
|
|
Replies: 18
Views: 4,426
Usage of gene aggregation option in DEXSeq
Hello Everyone,
I am using DEXSeq to find out differential usage of exons.
I want to know about the usage of gene aggregation option. After reading DEXSeq tutorial, I could understand that if I...
|
|
Forum: Introductions
04-18-2013, 03:37 AM
|
|
Replies: 4
Views: 1,575
Thank you very much
it is working now. But...
Thank you very much
it is working now. But it was just the matter of hyphen (-) before output file. I would have never figure it out.
Thanks again.
I would like to ask one more question here....
|
|
Forum: Introductions
04-18-2013, 02:34 AM
|
|
Replies: 4
Views: 1,575
Thanks for your reply
However, my bam file...
Thanks for your reply
However, my bam file is already sorted by read name. Same kind of input i have already given to htseq and it worked there. The only difference of input I could see from HTSeq...
|
|
Forum: Introductions
04-18-2013, 12:55 AM
|
|
Replies: 4
Views: 1,575
Error while running DEXSeq
I am working with Illumina RNAseq data. My experiment contain 5-5 biological replicates of normal and treated. Initially I followed cufflink-->cuffdiff workflow...
|
|
Forum: RNA Sequencing
03-07-2013, 08:08 PM
|
|
Replies: 4
Views: 3,496
answer for the same
Dear Sir,
Have you managed to get answer for this. We are looking for answer of similar question.
Thank you,
Mudita
|
