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HDF5Array
•
reset
6
votes
6
replies
1.7k
views
Is it possible to create `HDF5Array` Delayed Arrays from HDF5 files hosted on S3?
TileDBArray
HDF5Array
MultiAssayExperiment
3.2 years ago
Thomas Sandmann
▴ 90
12
votes
15
replies
3.4k
views
error with HDF5Array
hdf5array
biocparallel
updated 5.9 years ago by
Mike Smith
★ 6.5k • written 6.0 years ago by
cath
▴ 30
1
vote
4
replies
1.8k
views
Trouble loading 'lumi' package
lumi
illumina
hdf5array
updated 5.7 years ago by
James W. MacDonald
65k • written 5.7 years ago by
Alexander Azarian
▴ 30
4
votes
2
replies
1.3k
views
HDF5Array Single cell experiment objects - can on-disk files change?
HDF5Array
updated 5.2 years ago by
Aaron Lun
★ 28k • written 5.2 years ago by
sarah.williams1
▴ 40
2
votes
3
replies
1.1k
views
Generating a DelayedArray with a size greater than .Machine$integer.max
bit64
HDF5Array
DelayedArray
updated 2.8 years ago by
Hervé Pagès
16k • written 2.9 years ago by
Koki
▴ 10
1
vote
1
reply
1.1k
views
Extract only dataframes from AnnData objects
rhdf5
HDF5Array
anndata
SingleCellExperiment
updated 20 months ago by
Peter Hickey
▴ 740 • written 20 months ago by
merv
▴ 120
4
votes
6
replies
648
views
Problem loading HDF5Array in R 4.3.2
HDF5Array
updated 6 weeks ago by
Akshay
• 0 • written 5 months ago by
Sarah
▴ 10
3
votes
5
replies
1.3k
views
Block processing matrices of different dimensions with DelayedArray
HDF5Array
DelayedArray
updated 2.9 years ago by
Hervé Pagès
16k • written 2.9 years ago by
Pedro Baldoni
▴ 40
4
votes
3
replies
1.1k
views
Temporal directory setting for DelayedArray
HDF5Array
DelayedArray
2.8 years ago
Koki
▴ 10
4
votes
13
replies
1.8k
views
Speeding up of DelayedArray::write_block()
HDF5Array
DelayedArray
updated 6 months ago by
Hervé Pagès
16k • written 2.6 years ago by
Koki
▴ 10
4
votes
3
replies
967
views
Problem opening hdf5 files previously created with HDF5Array functions
HDF5Array
updated 2.5 years ago by
Mike Smith
★ 6.5k • written 2.5 years ago by
eric.kern13
▴ 20
2
votes
3
replies
1.6k
views
Efficiently working with HDF5-backed SingleCellExperiments
HDF5Array
SingleCellExperiment
DelayedArray
19 months ago
merv
▴ 120
0
votes
2
replies
499
views
Error in H5Fopen
HDF5Array
updated 9 months ago by
James W. MacDonald
65k • written 9 months ago by
gabriele.favaretto
• 0
1
vote
2
replies
1.1k
views
Error: C stack usage of HDF5Array
DelayedArray
HDF5Array
3.0 years ago
Koki
▴ 10
2
votes
6
replies
1.5k
views
"dim<-" against on-disk arrays
DelayedArray
TileDBArray
HDF5Array
updated 2.9 years ago by
Hervé Pagès
16k • written 3.0 years ago by
Koki
▴ 10
2
votes
4
replies
1.1k
views
`aperm`, `realize`, `writeHDF5Array`, and `ReshapedHDF5Array` are block size aware?
HDF5Array
DelayedArray
3.0 years ago • updated 2.9 years ago
Koki
▴ 10
9
votes
8
replies
1.4k
views
Processing time of blockApply and DelayedArray
DelayedArray
HDF5Array
updated 2.9 years ago by
Hervé Pagès
16k • written 2.9 years ago by
Pedro Baldoni
▴ 40
3
votes
3
replies
178
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array
BiocGenerics
BiocParallel
Biobase
14 days ago • updated 8 days ago
jacques.imbert
• 0
4
votes
1
reply
2.3k
views
Using HDF5Array writeHDF5Array for a large dgCMatrix
HDF5Array
dgCMatrix
updated 6.1 years ago by
Aaron Lun
★ 28k • written 6.1 years ago by
rubi
▴ 110
4
votes
1
reply
2.1k
views
How to save `SingleCellExperiment` with `DelayedArray` assay(s) in a portable format?
HDF5Array
SingleCellExperiment
DelayedArray
20 months ago
merv
▴ 120
0
votes
1
reply
872
views
How to incrementaly load the nzdata and nzindex from SparseArraySeed
TileDBArray
HDF5Array
DelayedArray
2.9 years ago
Koki
▴ 10
0
votes
0
replies
1.0k
views
Combining multiple MTX (matrix market) files to HDF5 Array format
HDF5Array
SingleCellExperiment
DelayedArray
20 months ago
merv
▴ 120
22 results • Page
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Answer: Dominance Index for Shotgun Metagenomics Data
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Leo Lahti
▴ 30
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
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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?
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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: 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?
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biomaRt error: database disk image is malformed
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