User: jka8119

gravatar for jka8119
jka811910
Reputation:
10
Status:
New User
Location:
Last seen:
1 month, 3 weeks ago
Joined:
5 months, 3 weeks ago
Email:
j******@gmail.com

Posts by jka8119

<prev • 14 results • page 1 of 2 • next >
0
votes
1
answers
46
views
1
answers
Comment: C: RcisTarget error with multicore processing
... Thanks for the help! I will try to run SCENIC with the multicore parameters adjusted as you suggested. ...
written 8 weeks ago by jka811910
0
votes
1
answers
46
views
1
answers
Comment: C: RcisTarget error with multicore processing
... Thanks. The runSCENIC_2_createRegulons command is part of the latest version of SCENIC (https://github.com/aertslab/SCENIC) Joe ...
written 8 weeks ago by jka811910
1
vote
1
answer
46
views
1
answer
RcisTarget error with multicore processing
... Hi,   I am getting the error below running  > runSCENIC_2_createRegulons(scenicOptions) 05:53 Step 2. Identifying regulons tfModulesSummary: top5perTarget top10perTarget w005 top50 top50perTarget 198 531 870 944 1254 ...
aucell scenic rcistarget written 8 weeks ago by jka811910 • updated 8 weeks ago by Martin Morgan ♦♦ 22k
0
votes
0
answers
88
views
0
answers
Comment: C: Error in zlm function model matrix
... I ended up upgrading to Bioconductor 3.7 and R 3.5, MAST 1.6.0. That eventually solved the problem. Thanks for the help. ...
written 3 months ago by jka811910
0
votes
0
answers
88
views
0
answers
Comment: C: Error in zlm function model matrix
... Still getting the same issue after reinstalling MAST (v 1.4.1). Perhaps i am having an issue with the version of limma i have? ...
written 3 months ago by jka811910
0
votes
0
answers
88
views
0
answers
Comment: C: Error in zlm function model matrix
... Thanks. I installed the source package using 'install.packages'. BiocInstaller::biocValid() reports it to be too new. ...
written 3 months ago by jka811910
0
votes
0
answers
88
views
0
answers
Error in zlm function model matrix
... Hi, I getting an error below with MAST: scaRaw <- FromMatrix(as.matrix(fibronorm), fibroidentities, subset(genes, genes$primerid %in% row.names(fibronorm))) cdr2 <-colSums(assay(scaRaw)>0) colData(scaRaw)$cngeneson <- scale(cdr2) cond<-factor(colData(scaRaw)$proinflammatoryvector) ...
mast written 3 months ago by jka811910
0
votes
0
answers
102
views
0
answers
Comment: C: GENIE3 error executing on numeric matrix
... Resolved. Did not realize %dopar% is in the foreach package. foreach was not loaded; once it is, GENIE3 works. ...
written 3 months ago by jka811910
0
votes
0
answers
102
views
0
answers
GENIE3 error executing on numeric matrix
... Hi, I am getting an error tying to run GENIE3 on an single cell RNA seq expression matrix (15121x6477 numeric matrix): > weightMatrix <- GENIE3(exprMatrix_filtered, regulators=inputTFs, nCores=24) Error in do.call("%dopar%", list(obj, ex), envir = parent.frame()) : could not find functio ...
genie3 written 3 months ago by jka811910
0
votes
1
answers
172
views
1
answers
Comment: C: MAST - not getting Hurdle p values
... It was the typo. Sometimes it is the smallest things... I appreciate your help. ...
written 5 months ago by jka811910

Latest awards to jka8119

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 232 users visited in the last hour