User: meeta.mistry

gravatar for meeta.mistry
meeta.mistry10
Reputation:
10
Status:
New User
Location:
United States
Last seen:
4 months ago
Joined:
2 years, 9 months ago
Email:
m***********@gmail.com

Posts by meeta.mistry

<prev • 24 results • page 1 of 3 • next >
0
votes
1
answers
169
views
1
answers
Comment: C: ChIPQC failed on chrM
... Hello I get this same error at the start of my run. Was there a solution to this? My sessionInfo is attached below but also I get a message when I load the library, not sure if this has anything to do with it: No methods found in "RSQLite" for requests: dbGetQuery Bam file has 93 contigs Error ...
written 4 months ago by meeta.mistry10
0
votes
1
answers
121
views
1
answers
Comment: C: ChIPQC report missing figures
... Hi Tom, Adding the Tissue and Condition columns appears to have solved the problem. Thanks very much! Best, Meeta ...
written 5 months ago by meeta.mistry10
1
vote
1
answer
121
views
1
answer
ChIPQC report missing figures
... Hi, I am trying to run ChIPQC on my data but for my final report I get blank plots for CrossCoverage and the Signal profile. I don't get any errors when creating the Chip object nor do I get errors when generating the report so it's hard to troubleshoot.  Here is a link to my report using only chr ...
chipqc software error written 5 months ago by meeta.mistry10 • updated 5 months ago by Thomas Carroll390
0
votes
4
answers
271
views
4
answers
Comment: C: limma paired design with continous covariate
... Thanks for the help. My design is setup like the latter with the different patients as separate factor levels.   ...
written 18 months ago by meeta.mistry10
0
votes
4
answers
271
views
4
answers
Comment: C: limma paired design with continous covariate
... Ok will do, thanks! ...
written 18 months ago by meeta.mistry10
0
votes
4
answers
271
views
4
answers
Answer: A: limma paired design with continous covariate
... I just realized what you meant. Age is already being controlled for within each pair since the samples for treatment and control come from the same individual. Should have seen that, sorry, Thanks! ...
written 18 months ago by meeta.mistry10
0
votes
4
answers
271
views
4
answers
Answer: A: limma paired design with continous covariate
... Sorry, that code is incorrect, it shoudl read:   # Setup design matrix age <- pData(data.norm)$Age treat <- pData(data.norm)$Treatment sample <- pData(data.norm)$Patient design <- model.matrix(~ sample + age + treat) # Fit model fit <- lmFit(exprs(data.norm), design) ...
written 18 months ago by meeta.mistry10
4
votes
4
answers
271
views
4
answers
limma paired design with continous covariate
... Hello; I have a simple design, but can't seem to find anything on Bioconductor support that addresses the error I am getting. Any help would be much appreciated. I have a paired design as shown below: > pData(data.norm) Treatment Patient Age Gender HD 3.1 control 3 25 F ...
limma paired covariate written 18 months ago by meeta.mistry10 • updated 18 months ago by Steve Lianoglou12k
0
votes
1
answers
418
views
1
answers
Comment: C: Mapping Affymetrix annotations with Bioconductor annotations
... Hi Jim, Many thanks for this script as it has been very useful in helping me build an annotation file. I have used your script to build annotation for Affymetrix HTA 2.0 array: (GeneChip® Human Transcriptome Array 2.0). I am able to create the mapper file (so your script works great!) But when I us ...
written 18 months ago by meeta.mistry10
0
votes
1
answers
397
views
1
answers
Comment: C: ChIPQC error: Error in generating sample data
... Hi Rory, Many thanks for your quick response, I have emailed you additional information please let me know if there is anything else I can provide! Meeta   ...
written 18 months ago by meeta.mistry10

Latest awards to meeta.mistry

Popular Question 17 months ago, created a question with more than 1,000 views. For DESeq2 with high dispersions
Popular Question 2.2 years ago, created a question with more than 1,000 views. For Problems getting Bioc 3.1 after upgrade to R_3.2.0

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 222 users visited in the last hour