Showing : BioCParallel • reset
2
votes
4
replies
3.0k
views
defaults in BiocParallel
biocparallel
updated 6.6 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 6.3 years ago by ★ 5.2k • 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
8.8 years ago Lorenz • 0
12
votes
15
replies
3.4k
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
1.2k
views
Error: BiocParallel errors
xcms msdata BiocParallel
7 months ago mavamay • 0
0
votes
3
replies
413
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 8.5 years ago by ★ 6.8k • written 8.5 years ago by • 0
0
votes
8
replies
1.8k
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
2.9k
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
1.6k
views
Installing package BiocParallel failed
biocparallel
updated 5.9 years ago by 25k • written 5.9 years ago by ★ 1.3k
4
votes
2
replies
917
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 7.5 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
829
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
999
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 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
2.1k
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 6.3 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
4.7k
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 8.4 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
8.3 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 7.5 years ago by 25k • written 7.5 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 6.9 years ago by 25k • written 6.9 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
Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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