Showing : BioCParallel • reset
6
votes
8
replies
2.7k
views
BioParallel::BatchtoolsParam() - how to pass customized resource variables to batchtool's "slurm-simple" template using BatchtoolsParam()?
biocparallel BatchtoolsParam
updated 7.0 years ago by ★ 6.6k • written 7.0 years ago by ▴ 40
4
votes
2
replies
1.3k
views
bpaggregate with formula returns strange error message
biocparallel bpaggregate aggregate
updated 7.3 years ago by 25k • written 7.3 years ago by ▴ 180
5
votes
6
replies
3.5k
views
BiocParallel: database disk image is malformed
biocparallel databases
updated 7.3 years ago by 25k • written 7.3 years ago by ▴ 470
1
vote
1
reply
2.3k
views
Installing package BiocParallel failed
biocparallel
updated 7.4 years ago by 25k • written 7.4 years ago by ★ 1.3k
1
vote
5
replies
1.7k
views
Help using 'handler' function with bptry()
biocparallel error handling
updated 7.4 years ago by 25k • written 7.4 years ago by ▴ 760
12
votes
15
replies
4.9k
views
error with HDF5Array
hdf5array biocparallel
updated 7.4 years ago by ★ 6.6k • written 7.5 years ago by ▴ 30
0
votes
1
reply
1.8k
views
Write gds in parallel
gds SNPRelate BiocParallel
updated 7.5 years ago by ▴ 30 • written 7.5 years ago by ▴ 40
1
vote
6
replies
2.3k
views
Disable messages for bplapply when in parallel
biocparallel bplapply
updated 7.6 years ago by 25k • written 7.6 years ago by ▴ 30
0
votes
3
replies
2.5k
views
BiocParallel NULL value passed as symbol address
BiocParallel Rcpp
updated 7.6 years ago by 25k • written 7.6 years ago by ▴ 30
1
vote
2
replies
1.8k
views
bplapply with ShortRead functions
shortread biocparallel
updated 7.7 years ago by 25k • written 7.7 years ago by ▴ 100
1
vote
1
reply
1.8k
views
Error: BiocParallel errors; first error: invalid 'times' value
MBASED biocparallel
updated 7.8 years ago by 25k • written 7.8 years ago by ▴ 10
1
vote
5
replies
3.2k
views
DiffBind does not run in parallel
diffbind parallel biocparallel
updated 7.8 years ago by ★ 5.2k • written 7.8 years ago by • 0
2
votes
1
reply
1.7k
views
Build error: could not find function "bplapply"
biocparallel build report
updated 7.8 years ago by 25k • written 7.8 years ago by ▴ 180
3
votes
3
replies
2.0k
views
BiocParallel: zombie processes on FORK cluster
biocparallel parallel
updated 7.8 years ago by 25k • written 7.8 years ago by ▴ 280
1
vote
0
replies
1.9k
views
Problems running oligo functions in parallel on a linux computer
biocparallel oligo rma linux parallel
7.9 years ago s.munster ▴ 40
0
votes
4
replies
1.8k
views
DESeq2 Different Results when using different foreach parallel backends
deseq2 biocparallel
7.9 years ago brnleehng • 0
2
votes
2
replies
1.6k
views
bplapply slow to decide number of cores
biocparallel
updated 8.0 years ago by 25k • written 8.0 years ago by ▴ 180
0
votes
0
replies
1.5k
views
Problem with BiocParallel::bpiterate
biocparallel bpiterate readGAlignmentPairs GenomicFiles::reduceByYield
8.1 years ago • updated 8.0 years ago ioannis.vardaxis ▴ 30
3
votes
2
replies
1.5k
views
Getting data/objects to workers in bplapply inside a function
biocparallel
updated 8.1 years ago by 25k • written 8.1 years ago by ▴ 190
2
votes
4
replies
4.0k
views
defaults in BiocParallel
biocparallel
updated 8.1 years ago by ★ 2.4k • written 11.1 years ago by ★ 6.5k
2
votes
10
replies
2.8k
views
Correct way to load a package inside bplapply function
parallel biocparallel
8.2 years ago felix.ernst • 0
1
vote
2
replies
2.2k
views
BiocParallel and CopywriteR Error
bioconductor biocparallel copywriter
updated 8.3 years ago by 25k • written 8.3 years ago by ▴ 10
3
votes
3
replies
1.5k
views
Parallel reading of Vcfs using VcfStack/RangedVcfStack
GenomicFiles BiocParallel
updated 8.3 years ago by 4.2k • written 8.4 years ago by ▴ 20
4
votes
7
replies
6.8k
views
BiocParallel/scater warning after move to R 3.4.0
biocparallel scater
updated 8.3 years ago by ▴ 40 • written 8.5 years ago by • 0
1
vote
4
replies
2.2k
views
TarSeqQC TargetExperiment() Error- failed to stop SOCKcluster cluster-error writing to connection
TarSeqQC R ngs biocparallel
updated 8.4 years ago by 25k • written 8.4 years ago by ▴ 10
5
votes
5
replies
2.0k
views
BiocParallel: messages shown only when processes finished
biocparallel
updated 8.4 years ago by 25k • written 8.4 years ago by ★ 2.1k
2
votes
3
replies
3.4k
views
BiocParallel::bplapply() performance with MulticoreParam() is worse than mclapply()
biocparallel parallel
8.4 years ago davide risso ▴ 980
0
votes
0
replies
862
views
Parallel version of viewApply?
viewApply biocparallel
8.5 years ago maltethodberg ▴ 180
0
votes
1
reply
1.4k
views
BiocParallel on Windows: how should I pass (not exported) setReplace functions to bplapply?
snowparam biocparallel
updated 8.7 years ago by 25k • written 8.7 years ago by ▴ 20
4
votes
5
replies
6.2k
views
BiocParallel on Windows : cannot find my functions when using SnowParam
BiocParallel SnowParam
updated 8.7 years ago by 25k • written 8.7 years ago by ▴ 60
4
votes
1
reply
1.7k
views
Parallel Join Excessively Slow
biocparallel curatedmetagenomicdata parallel dplyr
updated 8.9 years ago by 25k • written 8.9 years ago by ▴ 240
0
votes
8
replies
2.4k
views
`bplapply` breaks down (BiocParallel_1.6.6, R 3.3.1, openSUSE Leap)
biocparallel bplapply Suse error process
updated 8.9 years ago by • 0 • written 8.9 years ago by • 0
2
votes
9
replies
4.8k
views
Unable to calculate in parallel what can be calculated on a for loop
biocparallel foreach org.hs.eg.db gostats
updated 8.9 years ago by 25k • written 9.0 years ago by ▴ 760
5
votes
2
replies
1.8k
views
seeking idea for proper output representation for multiple GRanges overlapping
r grangeslist biocparallel findoverlaps
9.3 years ago • updated 9.0 years ago Jurat Shahidin ▴ 80
0
votes
1
reply
1.6k
views
BiocParallel and variable scope in child processes
parallel variable scope fork BiocParallel
updated 9.0 years ago by 25k • written 9.0 years ago by • 0
0
votes
1
reply
1.5k
views
Question about sumbition process and biocviews
biocviews biocparallel github package submission
updated 9.0 years ago by 25k • written 9.0 years ago by ▴ 30
0
votes
3
replies
2.3k
views
BiocParallel exporting function?
biocparallel
9.0 years ago ioannis.vardaxis ▴ 30
4
votes
3
replies
2.8k
views
BiocParallel: object export issue
BiocParallel DOSE
updated 9.0 years ago by 25k • written 9.0 years ago by ★ 4.1k
2
votes
7
replies
3.2k
views
DESeq(): Forking of R Process even though parallel=FALSE
DESeq2 biocparallel
updated 9.1 years ago by 43k • written 9.1 years ago by • 0
1
vote
1
reply
2.5k
views
Error in summarizeOverlaps: Error in names(res) <- nms; 'names' attribute [15] must be the same length as the vector [2]
software error summarizeoverlaps biocParallel
9.2 years ago chriad ▴ 10
0
votes
1
reply
1.4k
views
cant download biocparallel
biocparallel
updated 9.2 years ago by 25k • written 9.2 years ago by • 0
3
votes
4
replies
1.6k
views
bplapply stalling upon error with large data objects
biocparallel bplapply multicore
updated 9.2 years ago by 25k • written 9.2 years ago by ★ 29k
4
votes
5
replies
1.8k
views
parRapply in BiocParallel ?
biocparallel variantannotation
updated 9.4 years ago by ★ 11k • written 9.4 years ago by ▴ 350
1
vote
16
replies
3.1k
views
BiocParallel 1.5.20: Another error following example 4.2.1: all "remote" workers on localhost
biocparallel
updated 9.6 years ago by 25k • written 9.6 years ago by ▴ 20
1
vote
4
replies
1.7k
views
BiocParallel 1.4.3: Error following example 4.2.1 - "Error in 0.4 * nx/tasks : non-numeric argument to binary operator"
biocparallel
9.6 years ago lee.tibbert ▴ 20
3
votes
1
reply
1.1k
views
passing submitJobs parameters from BatchJobsParam
biocparallel
updated 9.7 years ago by 25k • written 9.7 years ago by ★ 1.9k
1
vote
2
replies
1.6k
views
Can bplapply timeout when waiting for long jobs?
biocparallel
updated 9.7 years ago by 25k • written 9.7 years ago by • 0
4
votes
4
replies
2.0k
views
Load balancing using BiocParallel
biocparallel
9.8 years ago t.kuilman ▴ 170
1
vote
2
replies
2.1k
views
BiocParallel::bplapply() performance issue
BiocParallel
updated 9.9 years ago by 25k • written 9.9 years ago by ▴ 30
0
votes
1
reply
1.5k
views
BiocParallel-1.4.0 bplapply bug when using nested lists and MulticoreParam
biocparallel bug
updated 9.9 years ago by ★ 6.8k • written 9.9 years ago by • 0
114 results • Page 2 of 3
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Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k
I can reproduce this and have opened an issue on the code base https://github.com/Bioconductor/support.bioconductor.org/issues/112
Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k
we can investigate this issue. thank you for bringing it to our attention
Comment: deseq2 filter the low counts by Michael Love 43k
> But within each comparison (contrast), if I trace some DEGs back to the original salmon merged gene counts (or even to normalised counts)…
Comment: deseq2 filter the low counts by empty_mt • 0
Thank you for you suggestion to look at the pre-filtering section in the DESeq2 vignettes - am I missing something? I have 6 treatments, …
Comment: deseq2 filter the low counts by Michael Love 43k
Have you seen this part: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#pre-filtering
Votes
Bioconductor 3.22 Released!
Comment: "Watched Tags" are being erased rather than updated
Comment: deseq2 filter the low counts
Answer: DESeq2 interactions
Answer: Important: Bioconductor Release 3.22 Delayed
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