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parallel
•
reset
6
votes
12
replies
1.8k
views
mclapply to loop over a GRangesList object
GenomicRanges
GRanges
GRangesList
parallel
mclapply
5.1 years ago
foehn
▴ 100
2
votes
4
replies
1.3k
views
Running HTSFilter in paralell
htsfilter
parallel
updated 8.2 years ago by
andrea.rau
▴ 80 • written 8.2 years ago by
Richard Yanicky
▴ 10
1
vote
5
replies
2.3k
views
DiffBind does not run in parallel
diffbind
parallel
biocparallel
updated 6.2 years ago by
Rory Stark
★ 5.1k • written 6.2 years ago by
eggrandio
• 0
0
votes
4
replies
1.6k
views
DESeq2 using many cores despite parallel = FALSE
deseq2
parallel
updated 4.5 years ago by
Michael Love
41k • written 4.5 years ago by
symbiologist
• 0
1
vote
6
replies
1.5k
views
Multithreading problems with qalign
quasr
parallel
updated 7.3 years ago by
Hotz, Hans-Rudolf
▴ 400 • written 7.3 years ago by
kirt.onthank
• 0
7
votes
4
replies
1.6k
views
How does BiocParallel export variables to threads?
BiocParallel
SnowParam
parallel
updated 3.8 years ago by
Martin Morgan
25k • written 3.8 years ago by
gabriel.hoffman
▴ 100
1
vote
1
reply
1.3k
views
DiffBind error with background=TRUE in dba.normalize?
BiocParallel
DiffBind
parallel
updated 3.2 years ago by
Rory Stark
★ 5.1k • written 3.2 years ago by
Victor
• 0
0
votes
1
reply
915
views
Running limma in parallel
parallel
R
limma
EWAS
updated 2.1 years ago by
Gordon Smyth
50k • written 2.1 years ago by
Lorenzo
• 0
3
votes
4
replies
1.3k
views
DiffBind (Error in if (DBA$config$parallelPackage))
parallel
R
DiffBind
updated 2.3 years ago by
Rory Stark
★ 5.1k • written 2.6 years ago by
eggrandio
• 0
2
votes
10
replies
2.1k
views
Correct way to load a package inside bplapply function
parallel
biocparallel
6.6 years ago
felix.ernst
• 0
4
votes
1
reply
1.3k
views
Parallel Join Excessively Slow
biocparallel
curatedmetagenomicdata
parallel
dplyr
updated 7.3 years ago by
Martin Morgan
25k • written 7.3 years ago by
Lucas Schiffer
▴ 240
1
vote
1
reply
1.5k
views
sva: Parallel execution of sva()-function fails.
sva
parallel
updated 7.1 years ago by
Martin Morgan
25k • written 7.1 years ago by
maltethodberg
▴ 170
1
vote
1
reply
1.0k
views
trigger package fails at parallalization - Transcriptional Regulatory Inference from Genetics of ExpRession
trigger
parallel
processing
multicore
updated 9.4 years ago by
Valerie Obenchain
★ 6.8k • written 9.4 years ago by
affennacken
• 0
3
votes
3
replies
1.6k
views
BiocParallel: zombie processes on FORK cluster
biocparallel
parallel
updated 6.2 years ago by
Martin Morgan
25k • written 6.2 years ago by
alserg
▴ 240
0
votes
1
reply
947
views
DiffBind count warning
diffbind
parallel
updated 6.1 years ago by
Rory Stark
★ 5.1k • written 6.1 years ago by
ghosos
• 0
0
votes
1
reply
1.2k
views
BiocParallel and variable scope in child processes
parallel
variable scope
fork
BiocParallel
updated 7.4 years ago by
Martin Morgan
25k • written 7.4 years ago by
dan.gatti
• 0
0
votes
0
replies
582
views
set.seed in function vs clusterSetRNGStream: switching from one to another
parallel
seed
21 months ago
ZheFrench
▴ 40
0
votes
1
reply
1.3k
views
News:
Course Announcement: Use R / Bioconductor for Sequence Analysis (Intermediate Course)
Course
RNA-Seq
Chip-seq
Parallel
News
9.1 years ago
Martin Morgan
25k
0
votes
1
reply
1.1k
views
Paralelization of maSigPro
maSigPro
parallel
8.5 years ago
gmdc
• 0
0
votes
3
replies
1.6k
views
DEXSeqHTML parallelization error
Parallel
DEXSeq
DEXSeqHTML
8.3 years ago
Neel Aluru
▴ 460
0
votes
4
replies
1.4k
views
Using iterators and foreach with doMC, using DNAStringSets
dnastringset
parallel
iterators
8.3 years ago
ben.ward
▴ 30
0
votes
9
replies
2.1k
views
problem using >3 clusters with Quasr
quasr
parallel
updated 8.2 years ago by
Martin Morgan
25k • written 8.2 years ago by
rna seq
▴ 90
0
votes
1
reply
1.2k
views
error when genomeFile too big when running Quasr on >3 clusters
quasr
parallel
cluster
8.1 years ago
rna seq
▴ 90
2
votes
3
replies
2.7k
views
BiocParallel::bplapply() performance with MulticoreParam() is worse than mclapply()
biocparallel
parallel
6.8 years ago
davide risso
▴ 950
1
vote
0
replies
1.4k
views
Problems running oligo functions in parallel on a linux computer
biocparallel
oligo
rma
linux
parallel
6.3 years ago
s.munster
▴ 40
0
votes
0
replies
1.2k
views
miR2Pathway Finite Observations
pathway analysis
mirna
parallel
6.0 years ago
genomic8328
▴ 10
0
votes
1
reply
514
views
Using multiple cores SCTensor package
SCTensor
Single Cell RNA Seq
Parallel
4.4 years ago
ieuangw
• 0
27 results • Page
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Answer: Minfi - estimatecellscount
by
James W. MacDonald
65k
Don't filter first. You are likely removing the CpGs that are used to estimate the cell counts.
Comment: limma models out of memory issue on Slurm HPC
by
SamGG
▴ 330
> Alternatively you could run each linear model fit (var1 to var6) in a separate batch run, and again that would presumably work. I think …
Comment: fgsea fork
by
shepherl
3.8k
For What its worth BiocManager should also be able to install the github remotes `BiocManager::install("ctlab/fgsea")`
Comment: fgsea fork
by
alserg
▴ 240
I'm also not sure what you mean by fork, but you also can install the latest version of fgsea directly from GitHub with `devtools::install_…
Comment: limma models out of memory issue on Slurm HPC
by
Jitendra
▴ 10
thanks Gordon, but our methylation epic array input file is quite big and we can't read it in R by just using laptop memory so we need to …
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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