Showing : BiocParallel • reset
2
votes
4
replies
3.0k
views
defaults in BiocParallel
biocparallel
updated 6.5 years ago by ★ 2.4k • written 9.6 years ago by ★ 6.5k
3
votes
6
replies
1.3k
views
nbinomLRT function all cores usage
deseq2 nbinomLRT sample size biocparallel
updated 5.5 years ago by ▴ 950 • written 5.5 years ago by • 0
1
vote
5
replies
2.4k
views
DiffBind does not run in parallel
diffbind parallel biocparallel
updated 6.2 years ago by ★ 5.1k • written 6.3 years ago by • 0
1
vote
10
replies
1.8k
views
bplapply 1.2.9 (and higher) breaks on Windows x64
biocparallel
8.7 years ago Lorenz • 0
12
votes
15
replies
3.3k
views
error with HDF5Array
hdf5array biocparallel
updated 5.9 years ago by ★ 6.5k • written 6.0 years ago by ▴ 30
0
votes
2
replies
1.1k
views
Error: BiocParallel errors
xcms msdata BiocParallel
7 months ago mavamay • 0
0
votes
3
replies
385
views
scran package: quickCluster and calculateSumFactors parallelization
BiocParallel scran
updated 3 months ago by ★ 4.0k • written 3 months ago by • 0
3
votes
3
replies
1.1k
views
Parallel reading of Vcfs using VcfStack/RangedVcfStack
GenomicFiles BiocParallel
updated 6.8 years ago by 3.8k • written 6.9 years ago by ▴ 20
3
votes
3
replies
1.4k
views
first error: could not find function "readGAlignments" in BiocParallel
BiocParallel
3.3 years ago Guandong Shang ▴ 40
2
votes
9
replies
3.9k
views
Unable to calculate in parallel what can be calculated on a for loop
biocparallel foreach org.hs.eg.db gostats
updated 7.4 years ago by 25k • written 7.5 years ago by ▴ 730
2
votes
3
replies
3.7k
views
BiocParallel example does not work any more (sbatch produced exit code 1)
biocparallel slurm
updated 8.4 years ago by ★ 6.8k • written 8.4 years ago by • 0
0
votes
8
replies
1.7k
views
`bplapply` breaks down (BiocParallel_1.6.6, R 3.3.1, openSUSE Leap)
biocparallel bplapply Suse error process
updated 7.4 years ago by • 0 • written 7.4 years ago by • 0
4
votes
7
replies
6.3k
views
BiocParallel/scater warning after move to R 3.4.0
biocparallel scater
updated 6.8 years ago by ▴ 40 • written 7.0 years ago by • 0
1
vote
2
replies
1.7k
views
BiocParallel and CopywriteR Error
bioconductor biocparallel copywriter
updated 6.8 years ago by 25k • written 6.8 years ago by ▴ 10
5
votes
6
replies
2.8k
views
BiocParallel: database disk image is malformed
biocparallel databases
updated 5.8 years ago by 25k • written 5.8 years ago by ▴ 470
1
vote
1
reply
1.5k
views
Installing package BiocParallel failed
biocparallel
updated 5.8 years ago by 25k • written 5.8 years ago by ★ 1.3k
4
votes
2
replies
907
views
bpaggregate with formula returns strange error message
biocparallel bpaggregate aggregate
updated 5.8 years ago by 25k • written 5.8 years ago by ▴ 170
12
votes
11
replies
4.2k
views
Memory usage for bplapply -- is the entire environment copied over to each worker thread?
bplapply biocparallel deseq2
updated 8.8 years ago by ★ 6.8k • written 8.8 years ago by ▴ 40
2
votes
10
replies
2.1k
views
Correct way to load a package inside bplapply function
parallel biocparallel
6.7 years ago felix.ernst • 0
1
vote
5
replies
1.2k
views
Help using 'handler' function with bptry()
biocparallel error handling
updated 5.9 years ago by 25k • written 5.9 years ago by ▴ 740
6
votes
8
replies
1.9k
views
BioParallel::BatchtoolsParam() - how to pass customized resource variables to batchtool's "slurm-simple" template using BatchtoolsParam()?
biocparallel BatchtoolsParam
updated 5.5 years ago by ★ 6.5k • written 5.5 years ago by ▴ 40
1
vote
2
replies
1.2k
views
bplapply with ShortRead functions
shortread biocparallel
updated 6.2 years ago by 25k • written 6.2 years ago by ▴ 100
0
votes
2
replies
1.1k
views
bplapply, MulticoreParam and messages
biocparallel
updated 8.8 years ago by ★ 6.8k • written 8.8 years ago by 41k
4
votes
5
replies
1.3k
views
parRapply in BiocParallel ?
biocparallel variantannotation
updated 7.9 years ago by ★ 11k • written 7.9 years ago by ▴ 350
5
votes
2
replies
1.4k
views
seeking idea for proper output representation for multiple GRanges overlapping
r grangeslist biocparallel findoverlaps
7.8 years ago • updated 7.4 years ago Jurat Shahidin ▴ 80
3
votes
4
replies
1.1k
views
bplapply stalling upon error with large data objects
biocparallel bplapply multicore
updated 7.7 years ago by 25k • written 7.7 years ago by ★ 28k
3
votes
1
reply
826
views
passing submitJobs parameters from BatchJobsParam
biocparallel
updated 8.2 years ago by 25k • written 8.2 years ago by ★ 1.9k
0
votes
1
reply
994
views
cant download biocparallel
biocparallel
updated 7.7 years ago by 25k • written 7.7 years ago by • 0
0
votes
2
replies
1.4k
views
Help with AMI hosted on bioconductor page, ami-a3d126c8
BiocParallel amazon
8.7 years ago • updated 8.6 years ago nitesh.turaga ▴ 140
4
votes
3
replies
1.8k
views
BiocParallel: object export issue
BiocParallel DOSE
updated 7.5 years ago by 25k • written 7.5 years ago by ★ 3.9k
0
votes
3
replies
1.7k
views
BiocParallel NULL value passed as symbol address
BiocParallel Rcpp
updated 6.1 years ago by 25k • written 6.1 years ago by ▴ 30
0
votes
1
reply
2.0k
views
Worker count specification in functions using bplapply from the BiocParallel pkg
VariantTools BiocParallel GenomicAlignments VariantTools BiocParallel GenomicAlignments
updated 9.9 years ago by 25k • written 9.9 years ago by ★ 13k
2
votes
1
reply
1.3k
views
Build error: could not find function "bplapply"
biocparallel build report
updated 6.3 years ago by 25k • written 6.3 years ago by ▴ 180
1
vote
1
reply
1.3k
views
Error: BiocParallel errors; first error: invalid 'times' value
MBASED biocparallel
updated 6.2 years ago by 25k • written 6.3 years ago by ▴ 10
1
vote
6
replies
1.6k
views
Disable messages for bplapply when in parallel
biocparallel bplapply
updated 6.1 years ago by 25k • written 6.1 years ago by ▴ 30
0
votes
1
reply
1.1k
views
BiocParallel on Windows: how should I pass (not exported) setReplace functions to bplapply?
snowparam biocparallel
updated 7.2 years ago by 25k • written 7.2 years ago by ▴ 20
4
votes
5
replies
4.6k
views
BiocParallel on Windows : cannot find my functions when using SnowParam
BiocParallel SnowParam
updated 7.2 years ago by 25k • written 7.2 years ago by ▴ 60
1
vote
2
replies
1.8k
views
BiocParallel::bplapply() performance issue
BiocParallel
updated 8.3 years ago by 25k • written 8.4 years ago by ▴ 30
4
votes
1
reply
1.3k
views
Parallel Join Excessively Slow
biocparallel curatedmetagenomicdata parallel dplyr
updated 7.4 years ago by 25k • written 7.4 years ago by ▴ 240
4
votes
4
replies
1.4k
views
Load balancing using BiocParallel
biocparallel
8.2 years ago t.kuilman ▴ 170
0
votes
1
reply
1.2k
views
BiocParallel-1.4.0 bplapply bug when using nested lists and MulticoreParam
biocparallel bug
updated 8.4 years ago by ★ 6.8k • written 8.4 years ago by • 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 25k • written 7.4 years ago by • 0
5
votes
5
replies
1.6k
views
BiocParallel: messages shown only when processes finished
biocparallel
updated 6.9 years ago by 25k • written 6.9 years ago by ★ 2.0k
1
vote
4
replies
1.7k
views
TarSeqQC TargetExperiment() Error- failed to stop SOCKcluster cluster-error writing to connection
TarSeqQC R ngs biocparallel
updated 6.8 years ago by 25k • written 6.8 years ago by ▴ 10
0
votes
3
replies
1.9k
views
BiocParallel exporting function?
biocparallel
7.5 years ago ioannis.vardaxis ▴ 30
3
votes
2
replies
1.0k
views
Getting data/objects to workers in bplapply inside a function
biocparallel
updated 6.5 years ago by 25k • written 6.5 years ago by ▴ 190
1
vote
16
replies
2.3k
views
BiocParallel 1.5.20: Another error following example 4.2.1: all "remote" workers on localhost
biocparallel
updated 8.1 years ago by 25k • written 8.1 years ago by ▴ 20
2
votes
2
replies
1.2k
views
bplapply slow to decide number of cores
biocparallel
updated 6.5 years ago by 25k • written 6.5 years ago by ▴ 180
0
votes
4
replies
1.3k
views
DESeq2 Different Results when using different foreach parallel backends
deseq2 biocparallel
6.4 years ago brnleehng • 0
0
votes
1
reply
1.2k
views
Question about sumbition process and biocviews
biocviews biocparallel github package submission
updated 7.5 years ago by 25k • written 7.5 years ago by ▴ 30
50 results • Page 1 of 1
Recent ...
Replies
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Chris • 0
Hi Robert, If I don't want to use all pathway in c2 gene set but only a few pathways of interested, how can I do that? So we try to get a …
Comment: How to retrieve detailed regression results from deseq2 by Weiqian ▴ 10
Hi Michael, thanks for the answer! I'll have a look : )
Comment: DESeq filtering specific to contrasts by Michael Love 41k
It will likely not filter it out, but really the per-dataset details would affect the results.
Comment: DESeq filtering specific to contrasts by Carlin95 • 0
Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…
Comment: FilterByExpr low counts with small sample size by Jonathan ▴ 10
Thank you for your answer; However, I have some follow-up questions. Following up in In your [1-2-3 article][1], you say that > "... the…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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