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Showing :
fishpond
•
reset
4
votes
7
replies
627
views
Fishpond/Swish Interaction Test Error
fishpond
swish
3 months ago
Miguel
▴ 20
0
votes
3
replies
372
views
Fishpond with unbalanced dataset
rna-seq
salmon
fishpond
swish
updated 3 months ago by
Michael Love
40k • written 3 months ago by
samuelcjx
• 0
1
vote
2
replies
412
views
collapseReplicates error after tximeta
fishpond
tximeta
DESeq2
7 months ago
Rihards Saksis
• 0
1
vote
3
replies
602
views
Swish: contrasts and interactions
fishpond
DESeq2
updated 5 months ago by
Michael Love
40k • written 13 months ago by
alexyz
• 0
0
votes
8
replies
955
views
Swish log2FC NA output
swish
fishpond
DifferentialExpression
13 months ago
jvandinter
• 0
5
votes
9
replies
1.2k
views
Questions regarding failing tximeta import for swish
swish
fishpond
GenomicFeatures
tximeta
updated 13 months ago by
Michael Love
40k • written 17 months ago by
jvandinter
• 0
0
votes
8
replies
1.0k
views
swish in a blocking design?
fishpond
swish
19 months ago
msll0802
• 0
1
vote
3
replies
958
views
Two Genotypes Four Treatments RNA-seq Analysis
salmon
rna-seq
swish
bootstrap
fishpond
updated 19 months ago by
Michael Love
40k • written 19 months ago by
samuelcjx
• 0
1
vote
1
reply
705
views
Swish with more than two conditions. Add support for contrasts?
tximeta
DESeq2
swish
fishpond
updated 20 months ago by
Michael Love
40k • written 20 months ago by
jeremymsimon
▴ 20
1
vote
2
replies
779
views
Swish direction of comparison based on order of factors
fishpond
2.0 years ago
Jean
• 0
2
votes
2
replies
1.4k
views
Volcano plots of DEGs from Swish are weird
DESeq2
fishpond
salmon
swish
2.0 years ago
Qin
▴ 10
0
votes
6
replies
1.0k
views
Running swish on a non-reference transcript assembly / tximeta import issue
tximeta
swish
fishpond
updated 2.4 years ago by
Michael Love
40k • written 2.4 years ago by
Jack Riley
• 0
1
vote
5
replies
909
views
Swish (fishpond) scaled counts result
Swish
fishpond
2.6 years ago
675743
▴ 10
3
votes
6
replies
973
views
Swish with covariate for batch effect
swish
fishpond
2.9 years ago
thomas.dugedebernonville
• 0
2
votes
2
replies
611
views
the result of swish function from fishpond package
fishpond
swish
updated 3.3 years ago by
Michael Love
40k • written 3.3 years ago by
1911449
• 0
15 results • Page
1 of 1
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Replies
Comment: DataFrame Construction With Non-standard Column
by
ATpoint
★ 3.4k
Out of interest, `SimpleList()` works without `I()`, why is that?
Answer: DataFrame Construction With Non-standard Column
by
Hervé Pagès
16k
You need to protect the list by wrapping it in `I()`, otherwise the `DataFrame()` constructor interprets it as a list of 3 columns (so it t…
Comment: Speeding up of DelayedArray::write_block()
by
Koki
▴ 10
Thank you, I have a very clear understanding of the situation. > COO_Sparse_HDF5RealizationSink(), writeHDF5SparseArray(), COO_H5SparseArr…
Comment: Speeding up of DelayedArray::write_block()
by
Koki
▴ 10
There are a few places inside my `DelayedTensor` package that use `SparseArraySeed`. Will these stop working in next coming BioC 3.18, whe…
Comment: DelayedArray::read_sparse_block
by
Hervé Pagès
16k
No. But I will need to modify the `write_block()` method for TENxRealizationSink implemented in **HDF5Array** to make it handle blocks that…
Votes
Answer: Further analysis after limma regression output
A: collapseReplicates in DESeq2
Answer: DataFrame Construction With Non-standard Column
Steps needed to change design (relevel factors) in DESeq2
Steps needed to change design (relevel factors) in DESeq2
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