User: Andrew Yee

gravatar for Andrew Yee
Andrew Yee350
Reputation:
350
Status:
Trusted
Location:
Last seen:
7 years, 1 month ago
Joined:
11 years, 9 months ago
Email:
y**@post.harvard.edu

Posts by Andrew Yee

<prev • 34 results • page 1 of 4 • next >
0
votes
1
answer
622
views
1
answers
Comment: C: mouse4302.db and can't find gene symbol annotation
... Thanks for the information, that's extremely helpful. Thanks, Andrew On Tue, Oct 23, 2012 at 10:43 AM, James W. MacDonald wrote: > Hi Andrew, > > > On 10/22/2012 10:58 PM, Andrew Yee wrote: >> >> I know I've raised a similar issue in May 2009 concerning how >> freque ...
written 7.1 years ago by Andrew Yee350
0
votes
1
answer
622
views
1
answer
mouse4302.db and can't find gene symbol annotation
... I know I've raised a similar issue in May 2009 concerning how frequently the annotation packages are updated, and I imagine this issue has been raised by others as well: For this probe set id, 1449880_s_at, I am having some difficulty finding annotation information for it in the mouse4302.db. The ...
annotation mouse4302 probe written 7.1 years ago by Andrew Yee350 • updated 7.1 years ago by James W. MacDonald52k
0
votes
0
answers
610
views
0
answers
changing directory in RStudio and Bioconductor AMI and Amazon EC2
... I'm not sure if this is the best place to address this question, but not sure where else to turn: I've been exploring RStudio using the Bioconductor ami, ami-b5a079dc, and running a micro instance (this has Bioconductor 2.10 and R 2.15 in the instance). I've been able to run RStudio. However, I c ...
written 7.7 years ago by Andrew Yee350
0
votes
2
answers
970
views
2
answers
Comment: C: accessing GenBank features
... > The objective needs to be clarified. ?genbank() does a reasonably> well-documented task, and it returns _all_> the information (when disp="data"), it just doesn't model the response> except as an XMLDocument instance. ?The> retmode setting affects what comes back -- i used "text" an ...
written 8.2 years ago by Andrew Yee350
0
votes
2
answers
970
views
2
answers
Comment: C: accessing GenBank features
... Thanks for posting this...I was going to post it as well. Question: is there a way for the genbank() function to be updated to pull this additional information down by default? In the Biostar post by neilfws, he points out that the sig_peptide information isn't in the XML data retrieved by genban ...
written 8.2 years ago by Andrew Yee350
0
votes
2
answers
970
views
2
answers
accessing GenBank features
... Thinking about this more broadly, is there a Bioconductor package that lets you parse out the different features listed in a GenBank feature, somewhat akin to this: http://www.bioperl.org/wiki/HOWTO:Feature-Annotation Thanks, Andrew On Wed, Sep 21, 2011 at 5:41 PM, Andrew Yee wrote: > Thanks ...
annotation written 8.2 years ago by Andrew Yee350 • updated 8.2 years ago by Martin Morgan ♦♦ 24k
0
votes
1
answer
624
views
1
answers
Comment: C: annotate() and genbank and XML
... Thanks for the reply. ?I guess on a broader level, is there a way to extract the sig_peptide field from http://www.ncbi.nlm.nih.gov/nuccore/NM_000610.3 I'm trying to figure out why the document reference in Carey's example doesn't contain "sig_peptide" yet is visible on that web page. Perhaps the ...
written 8.2 years ago by Andrew Yee350
0
votes
1
answer
624
views
1
answer
annotate() and genbank and XML
... Hi, I'm looking for some guidance in terms of parsing the XML output from a genbank query. result <- genbank('NM_000610', disp='data', type='uid') I'm trying to figure out how to use the XML package in order to parse out the "sig_peptide" field from the XML output from the genbank query. Any p ...
written 8.2 years ago by Andrew Yee350 • updated 8.2 years ago by Vincent J. Carey, Jr.6.3k
0
votes
1
answer
1.2k
views
1
answers
Comment: C: readCtData() in HTqPCR with matrix of multiple samples
... Thanks, that works! On Sun, Mar 20, 2011 at 3:21 PM, Heidi Dvinge wrote: > Hi Andrew, > >> Hi I was wondering if you can read a tab delimited file of micro array >> data using readCtData() in HTqPCR as follows: >> >> Detector ? SampleA ? SampleB etc. >> Gene1 ? ...
written 8.7 years ago by Andrew Yee350
0
votes
1
answer
1.2k
views
1
answer
readCtData() in HTqPCR with matrix of multiple samples
... Hi I was wondering if you can read a tab delimited file of micro array data using readCtData() in HTqPCR as follows: Detector SampleA SampleB etc. Gene1 20 23 Gene 2 32 25 etc. I've tried foo <- readCtData('file.txt', header=T, n.features=381, samples=samp ...
htqpcr written 8.7 years ago by Andrew Yee350 • updated 8.7 years ago by Heidi Dvinge2.0k

Latest awards to Andrew Yee

Popular Question 7.1 years ago, created a question with more than 1,000 views. For readCtData() in HTqPCR with matrix of multiple samples

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 350 users visited in the last hour