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fishpond
•
reset
2
votes
2
replies
2.1k
views
Volcano plots of DEGs from Swish are weird
DESeq2
fishpond
salmon
swish
2.7 years ago
Qin
▴ 10
5
votes
9
replies
1.6k
views
Questions regarding failing tximeta import for swish
swish
fishpond
GenomicFeatures
tximeta
updated 21 months ago by
Michael Love
42k • written 2.1 years ago by
jvandinter
• 0
0
votes
6
replies
1.4k
views
Running swish on a non-reference transcript assembly / tximeta import issue
tximeta
swish
fishpond
updated 3.1 years ago by
Michael Love
42k • written 3.1 years ago by
Jack Riley
• 0
1
vote
3
replies
1.4k
views
Two Genotypes Four Treatments RNA-seq Analysis
salmon
rna-seq
swish
bootstrap
fishpond
updated 2.3 years ago by
Michael Love
42k • written 2.3 years ago by
samuelcjx
• 0
0
votes
8
replies
1.4k
views
swish in a blocking design?
fishpond
swish
2.2 years ago
msll0802
• 0
0
votes
8
replies
1.4k
views
Swish log2FC NA output
swish
fishpond
DifferentialExpression
21 months ago
jvandinter
• 0
3
votes
6
replies
1.3k
views
Swish with covariate for batch effect
swish
fishpond
3.6 years ago
thomas.dugedebernonville
• 0
3
votes
5
replies
1.3k
views
Swish (fishpond) scaled counts result
Swish
fishpond
3.3 years ago • updated 3.2 years ago
675743
▴ 20
4
votes
7
replies
1.1k
views
Fishpond/Swish Interaction Test Error
fishpond
swish
11 months ago
Miguel
▴ 20
1
vote
3
replies
1.1k
views
Swish: contrasts and interactions
fishpond
DESeq2
updated 13 months ago by
Michael Love
42k • written 21 months ago by
alexyz
• 0
1
vote
2
replies
1.0k
views
Swish direction of comparison based on order of factors
fishpond
2.7 years ago
Jean
• 0
1
vote
1
reply
1.0k
views
Swish with more than two conditions. Add support for contrasts?
tximeta
DESeq2
swish
fishpond
updated 2.3 years ago by
Michael Love
42k • written 2.3 years ago by
jeremymsimon
▴ 20
3
votes
2
replies
885
views
the result of swish function from fishpond package
fishpond
swish
updated 3.9 years ago by
Michael Love
42k • written 3.9 years ago by
1911449
• 0
1
vote
3
replies
822
views
collapseReplicates error after tximeta
fishpond
tximeta
DESeq2
updated 7 months ago by
Michael Love
42k • written 15 months ago by
Rihards Saksis
• 0
0
votes
3
replies
713
views
Fishpond with unbalanced dataset
rna-seq
salmon
fishpond
swish
updated 11 months ago by
Michael Love
42k • written 11 months ago by
samuelcjx
• 0
0
votes
3
replies
329
views
Interaction tests and paired interaction tests in swish
swish
salmon
fishpond
updated 3 months ago by
Michael Love
42k • written 3 months ago by
Nicholas
• 0
16 results • Page
1 of 1
Recent ...
Replies
Comment: Ensembl plants at annotationHub?
by
Daniele
• 0
Thank you so much!
Answer: recount3 problem downloading data from source sra
by
Leonardo Collado Torres
★ 1.0k
Hi, I wasn't able to reproduce the issue on both bioc 3.19 (current release version) and 3.18 (closer to your session info). My guess is…
Answer: Running ENmix with mouse methylation manifest: readidat error - Error in readman
by
minardsmitha
▴ 10
Well it turns out there is a typo in the manifest file name. This particular issue is resolved by correcting the typo. A new error now …
Answer: Documenting resources in an `ExperimentHub` package?
by
James W. MacDonald
66k
The easiest way to do that IMO is to use emacs/ESS (or I believe there is some newfangled thing called RStudio? Not personally familiar, bu…
Comment: ChAMP installation issue
by
shepherl
3.9k
We are still waiting for the goseq to respond to our requests but will take action next week if it is not resolved. ChAMP is currently una…
Votes
Answer: Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
Comment: Ensembl plants at annotationHub?
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
Comment: LRT, more than two conditions and pairwise comparisons
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