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HDF5Array
•
reset
3
votes
3
replies
164
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array
BiocGenerics
BiocParallel
Biobase
11 days ago • updated 5 days ago
jacques.imbert
• 0
4
votes
6
replies
643
views
Problem loading HDF5Array in R 4.3.2
HDF5Array
updated 6 weeks ago by
Akshay
• 0 • written 4 months ago by
Sarah
▴ 10
0
votes
2
replies
495
views
Error in H5Fopen
HDF5Array
updated 9 months ago by
James W. MacDonald
65k • written 9 months ago by
gabriele.favaretto
• 0
2
votes
3
replies
1.6k
views
Efficiently working with HDF5-backed SingleCellExperiments
HDF5Array
SingleCellExperiment
DelayedArray
19 months ago
merv
▴ 120
1
vote
1
reply
1.1k
views
Extract only dataframes from AnnData objects
rhdf5
HDF5Array
anndata
SingleCellExperiment
updated 19 months ago by
Peter Hickey
▴ 740 • written 19 months ago by
merv
▴ 120
4
votes
1
reply
2.1k
views
How to save `SingleCellExperiment` with `DelayedArray` assay(s) in a portable format?
HDF5Array
SingleCellExperiment
DelayedArray
19 months ago
merv
▴ 120
0
votes
0
replies
1.0k
views
Combining multiple MTX (matrix market) files to HDF5 Array format
HDF5Array
SingleCellExperiment
DelayedArray
19 months ago
merv
▴ 120
4
votes
3
replies
960
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
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
1.1k
views
Temporal directory setting for DelayedArray
HDF5Array
DelayedArray
2.8 years ago
Koki
▴ 10
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
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
0
votes
1
reply
868
views
How to incrementaly load the nzdata and nzindex from SparseArraySeed
TileDBArray
HDF5Array
DelayedArray
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
2
votes
4
replies
1.1k
views
`aperm`, `realize`, `writeHDF5Array`, and `ReshapedHDF5Array` are block size aware?
HDF5Array
DelayedArray
2.9 years ago
Koki
▴ 10
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
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
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
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
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
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
22 results • Page
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Comment: get BM error
by
Mike Smith
★ 6.5k
Can you provide an example of the Ensemble IDs you're trying to convert?
Comment: How to retrieve gene ontology GO class?
by
bandconductor
• 0
Sorry I wasn't clear before. What I mean is the all the information associated with the go term, such as description and evidence. I have …
Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
How am i making the data? I am using the DESeq2 output data which I had generated
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
by
Michael Love
41k
Sounds reasonable. For ranking genes, you could choose those with low decay rate but removing thoses where it is indistinguishable from …
Answer: Citation for edgeR user guide
by
Gordon Smyth
50k
Thanks for thinking about how to cite edgeR. Citations are indeed the main way by which the edgeR authors get credit for their work. The Us…
Votes
Answer: Citation for edgeR user guide
Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)
Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: minfi::read.metharray.exp
Comment: Trying to use enrichGO
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