User: Avinash S

gravatar for Avinash S
Avinash S40
Reputation:
40
Status:
New User
Location:
United States
Last seen:
2 years, 5 months ago
Joined:
6 years, 1 month ago
Email:
a******@gmail.com

Posts by Avinash S

<prev • 5 results • page 1 of 1 • next >
0
votes
1
answer
2.2k
views
1
answers
Comment: C: DESeqDataSetFromTximport: Error in checkSlotAssignment
... @JWCarlson found the workaround.. (he hit the 5-post limit) The DESeq2 package will need to be tweaked to account for the latest change in S4Vectors. Creating the class definitions: setClassUnion("characterORNULL", c("character", "NULL”)) setClassUnion(“DataTableORNULL", c(“DataTable", "NULL”)) The ...
written 2.5 years ago by Avinash S40
0
votes
1
answer
2.2k
views
1
answers
Comment: C: DESeq2 - working with partial replicates
... Thanks a lot Mike. Did not realize that I was using an older version. I will upgrade to V1.2.9. -Avinash On 28 January 2014 21:18, Michael Love wrote: > Hi Avinash, > > You can use the DESeq() function as you have and it will take care of the > dispersion estimation automatically. & ...
written 5.7 years ago by Avinash S40
0
votes
1
answer
2.2k
views
1
answer
DESeq2 - working with partial replicates
... Hello, I'm trying to use DESeq2 for differential expression analysis of RNA- seq data containing Control (CR) and two Treatments (HR and SR). One of the biological replicate for HR treatment failed leaving me with 2 replicates for CR and SR and 1 for HR. DESeq document described "Working partially ...
go edger deseq2 written 5.7 years ago by Avinash S40 • updated 5.7 years ago by Michael Love25k
0
votes
0
answers
1.2k
views
0
answers
edgeR - common dispersion and BCV
... Hello, I'm using edgeR for analyzing RNA-seq data containing Control (CR) and two Treatments (HR and SR) with 2 replicates for each. Based on the common dispersion, BCV and the MDS plot, it looks like biological replicates of HR samples does not correlate well. Therefore, the Dispersion value I go ...
go edger written 5.7 years ago by Avinash S40
0
votes
1
answer
542
views
1
answers
Comment: C: Genes and Metabolites
... Hi N.O., If you have not already tried already, PMN (http://www.plantcyc.org/) would be quite useful. You should find the required info in AraCyc. However, you may have to create a login and play around a bit to get right details. All the best, Avinash On 12 September 2013 05:58, Pj Dias wrote: ...
written 6.1 years ago by Avinash S40

Latest awards to Avinash S

Popular Question 2.4 years ago, created a question with more than 1,000 views. For edgeR - common dispersion and BCV
Popular Question 5.1 years ago, created a question with more than 1,000 views. For DESeq2 - working with partial replicates

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 185 users visited in the last hour