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Showing :
BiocParallel
•
reset
2
votes
2
replies
460
views
Running multiple KNN queries in parallel
BiocParallel
BiocNeighbors
4 months ago • updated 3 months ago
SamGG
▴ 360
0
votes
1
reply
292
views
Unevaluated error in ChIPQC combined with BiocParallel
BiocParallel
ChIPQC
written 6 months ago by
Young Boqin
• 0
0
votes
0
replies
532
views
modelGeneVar in MulticoreParam: wrong args for environment subassignment
BiocParallel
scran
BiocParall
6 months ago
Lluís Revilla Sancho
▴ 760
0
votes
0
replies
471
views
Error in serialization
scDblFinder
BiocParallel
8 months ago
Lluís Revilla Sancho
▴ 760
2
votes
6
replies
1.1k
views
Create multiple DoparParams with different number of registered cores
BiocParallel
updated 9 months ago by
James W. MacDonald
68k • written 9 months ago by
ATpoint
★ 4.8k
1
vote
2
replies
541
views
Reproducibility issue with scran together with lapply and BiocParallel
scran
BiocParallel
bluster
11 months ago
ATpoint
★ 4.8k
3
votes
3
replies
1.0k
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array
BiocGenerics
BiocParallel
Biobase
11 months ago
jacques.imbert
• 0
0
votes
3
replies
1.1k
views
scran package: quickCluster and calculateSumFactors parallelization
BiocParallel
scran
updated 14 months ago by
ATpoint
★ 4.8k • written 15 months ago by
qwang178
• 0
1
vote
4
replies
1.8k
views
BiocParallel serialization errors on Windows
variancePartition
BiocParallel
15 months ago
hayleyw
• 0
0
votes
2
replies
3.3k
views
Error: BiocParallel errors
xcms
msdata
BiocParallel
19 months ago
mavamay
• 0
1
vote
11
replies
2.6k
views
BiocParallel 1.33.12 binary has incorrect library linkage on macOS x86
BiocParallel
updated 23 months ago by
Martin Morgan
25k • written 23 months ago by
Michael Steinbaugh
▴ 90
0
votes
2
replies
1.6k
views
Usinig BiocParallel package in R with M1 MAC
RStudio
R
M1
BiocParallel
Mac
updated 2.3 years ago by
Christian Mertes
• 0 • written 2.4 years ago by
me.achleitner
• 0
0
votes
1
reply
1.2k
views
Biocparallel Error "Error: BiocParallel errors element index: 1, 2, 3 first error: unable to find an inherited method for function ‘bpbackend’ fo…
R
OUTRIDER
BiocParallel
updated 2.3 years ago by
Christian Mertes
• 0 • written 2.4 years ago by
me.achleitner
• 0
1
vote
1
reply
1.1k
views
Limit the number of nodes in DESeq2
DESeq2
BiocParallel
updated 2.4 years ago by
ATpoint
★ 4.8k • written 2.4 years ago by
Sebastian
▴ 10
0
votes
0
replies
1.4k
views
gseDo function issue
Biocpa
BiocParallel
2.5 years ago
meetdpanjwani1990
• 0
4
votes
13
replies
5.0k
views
BiocParallel error with ChIPQC
BiocManager
ChIPQC
RSamtools
BiocParallel
updated 2.2 years ago by
Rory Stark
★ 5.2k • written 2.8 years ago by
etiennedanis
• 0
2
votes
2
replies
4.1k
views
BiocParallel error when running DiffBind
BiocParallel
BiocPa
DiffBind
updated 3.0 years ago by
Martin Morgan
25k • written 3.1 years ago by
r.finn
▴ 10
1
vote
1
reply
1.1k
views
Use MulticoreParam under BatchtoolsParam
BatchtoolsParam
MulticoreParam
BiocParallel
updated 3.0 years ago by
Martin Morgan
25k • written 3.1 years ago by
jianhai.zhang
• 0
2
votes
4
replies
1.4k
views
Load packages when using BatchtoolsParam
BatchtoolsParam
BiocParallel
3.0 years ago • updated 2.9 years ago
jianhai.zhang
• 0
3
votes
2
replies
1.6k
views
BiocParallel errors from muscat
BiocParallel
muscat
single-cell
3.0 years ago
tangming2005
▴ 200
0
votes
3
replies
1.0k
views
How to get DESeq2 results in large count matix files?
DESeq2
BiocParallel
MulticoreParam
updated 3.2 years ago by
Michael Love
43k • written 3.2 years ago by
mathavanbioinfo
▴ 20
0
votes
0
replies
879
views
BiocParallel errors in XCMS peak-picking
BiocParallel
xcms
biocparallel
3.4 years ago
noerman
• 0
1
vote
5
replies
1.9k
views
slow bplapply?
BiocParallel
3.4 years ago • updated 2.3 years ago
Wu, Hao
▴ 20
3
votes
3
replies
2.2k
views
Ensuring reproducibility in BiocParallel SingleCellExperiment workflows
scater
SingleCellExperiment
BiocParallel
scuttle
scran
3.4 years ago
enricoferrero
▴ 680
0
votes
4
replies
2.3k
views
DESeq2::DESeq(..., parallel = TRUE) fails if a partition has only genes with 0 counts across all samples
DESeq2
BiocParallel
3.7 years ago
Steffi Grote
▴ 10
2
votes
2
replies
1.9k
views
scater::calculatePCA error when using BPPARAM = MulticoreParam
calculatePCA
BPPARAM
scater
BiocParallel
runPCA
3.8 years ago
doliv071
• 0
0
votes
1
reply
1.5k
views
Error while running variancePartition::dream()
variancePartition
limma
BiocParallel
3.9 years ago
Junghoon
▴ 10
0
votes
1
reply
1.4k
views
Excessive memory requirement of variancePartition::dream()
BiocParallel
limma
variancePartition
3.9 years ago • updated 3.8 years ago
Junghoon
▴ 10
0
votes
4
replies
1.5k
views
BiocParallel: bplapply invents data
BiocParallel
ShortRead
4.0 years ago
robmaz77
▴ 20
0
votes
0
replies
1.7k
views
BiocParallel errors with xcms
BiocParallel
xcms
4.0 years ago
Yuki
▴ 10
2
votes
2
replies
1.2k
views
how to use biocParallel for large local variables?
BiocParallel
4.2 years ago
oyoung122
▴ 20
3
votes
3
replies
1.9k
views
first error: could not find function "readGAlignments" in BiocParallel
BiocParallel
4.2 years ago
Guandong Shang
▴ 40
1
vote
1
reply
1.9k
views
DiffBind error with background=TRUE in dba.normalize?
BiocParallel
DiffBind
parallel
updated 4.2 years ago by
Rory Stark
★ 5.2k • written 4.2 years ago by
Victor
• 0
1
vote
1
reply
1.3k
views
addPatternDensity in 'qsea' takes too much time
MBD-seq
qsea
BiocParallel
updated 4.3 years ago by
Matthias Lienhard
▴ 280 • written 4.3 years ago by
mbk0asis
• 0
3
votes
7
replies
2.7k
views
Which version of R to use for "HiCDCPlus" "HiC-DC+"
HiC-DC+
HiCDCPlus
BiocParallel
updated 4.1 years ago by
koushik
• 0 • written 4.4 years ago by
Tay
▴ 10
0
votes
0
replies
886
views
Job:
Two Fellowship Positions in Bioinformatics and Toxicology are avaiable immediately at US EPA
job
updated 4.4 years ago by
Michael Love
43k • written 4.4 years ago by
whduke
• 0
7
votes
4
replies
2.1k
views
How does BiocParallel export variables to threads?
BiocParallel
SnowParam
parallel
updated 4.8 years ago by
Martin Morgan
25k • written 4.8 years ago by
gabriel.hoffman
▴ 170
0
votes
6
replies
1.5k
views
BiocParallel with drake hangs
BiocParallel
5.1 years ago
biomiha
▴ 20
2
votes
2
replies
1.0k
views
Number of MPI slaves in BiocParallel
BiocParallel
updated 5.2 years ago by
Martin Morgan
25k • written 5.2 years ago by
Homer
• 0
0
votes
2
replies
1.1k
views
Run jobs asynchronously with BiocParellel
BiocParallel
future
batchtools
updated 5.4 years ago by
Martin Morgan
25k • written 5.4 years ago by
Qiang
▴ 80
0
votes
2
replies
1.3k
views
Issue/Error with DEXSeq design formulae in testForDEU function
deseq2
DEXSeq
BioCParallel
updated 5.6 years ago by
Alejandro Reyes
★ 1.9k • written 5.6 years ago by
acciardo
• 0
1
vote
4
replies
2.6k
views
BiocParallel: What its the best way to pass large a dataset for parallel processing?
bioconductor
bplapply
bpiterate
iterator
BiocParallel
updated 5.7 years ago by
Martin Morgan
25k • written 5.7 years ago by
gabriel.hoffman
▴ 170
0
votes
1
reply
1.7k
views
ChIPQC BiocParallel errors
ChIPQC
ChIPQC error
BiocParallel
5.8 years ago
minervajunjun
• 0
2
votes
1
reply
2.3k
views
Rsubread installation problem
Rsubread
BiocParallel
updated 5.9 years ago by
Gordon Smyth
52k • written 5.9 years ago by
agustin.gonvi
▴ 20
2
votes
3
replies
1.8k
views
bplapply - only SerialParam or single worker Multicore working on R/macos 10.14
BiocParallel
mac
R
updated 6.1 years ago by
Martin Morgan
25k • written 6.1 years ago by
geo.vogler
▴ 10
0
votes
6
replies
2.1k
views
how to achieve reproducibility with BiocParallel regardless of number of threads and OS (set.seed is disallowed)
BiocParallel
updated 6.3 years ago by
Aaron Lun
★ 28k • written 6.3 years ago by
luluchen
• 0
3
votes
6
replies
1.7k
views
nbinomLRT function all cores usage
deseq2
nbinomLRT
sample size
biocparallel
updated 6.4 years ago by
davide risso
▴ 980 • written 6.4 years ago by
mcalgaro93
• 0
2
votes
5
replies
3.1k
views
Issue with BiocParallel
purecn
biocparallel
6.5 years ago
milos-91
• 0
6
votes
8
replies
2.4k
views
BioParallel::BatchtoolsParam() - how to pass customized resource variables to batchtool's "slurm-simple" template using BatchtoolsParam()?
biocparallel
BatchtoolsParam
updated 6.5 years ago by
Mike Smith
★ 6.6k • written 6.5 years ago by
Chao-Jen Wong
▴ 40
4
votes
2
replies
1.2k
views
bpaggregate with formula returns strange error message
biocparallel
bpaggregate
aggregate
updated 6.7 years ago by
Martin Morgan
25k • written 6.8 years ago by
maltethodberg
▴ 180
50 results • Page
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Comment: DESeq2 - human data, weird results, troubleshooting
by
bd2000
▴ 30
I didn't include all of my code the post would be too long. Here's a link to my GitHub if anyone would like to see the full code: [Full Rst…
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
James W. MacDonald
68k
The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
ATpoint
★ 4.8k
> since there doesn't seem to be as much count variability, No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…
Comment: Ensembl site unresponsive via biomaRt
by
darylruiz6545
• 0
Thank you so much for sharing the link.
Comment: compute_fasta_digest does not match Salmon index hash
by
Alex
• 0
I use the `fastaDigest` tool from [COMBINE-lab/fastaDigest](https://github.com/COMBINE-lab/FastaDigest/), which has the function `compute_f…
Votes
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
Two EPIC Methylation Array Analysis Questions
How to get DMR for Infinium methylation EPIC v2
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
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