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NanoStringDiff
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1.6k
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fgsea/clusterProfiler Packages for nCounter data enrichment analysis
NanoStringDiff
clusterProfiler
fgsea
20 months ago
pg45863
▴ 10
0
votes
2
replies
1.3k
views
Nanostring data differential expression analysis: limma or DESeq2?
DESeq2
NanoStringDiff
limma
20 months ago
pg45863
▴ 10
0
votes
1
reply
873
views
Micro Array GEO data analysis
GEOquery
MicroarrayData
Normalization
Microarray
NanoStringDiff
updated 2.0 years ago by
James W. MacDonald
67k • written 2.0 years ago by
Aleksandra
• 0
0
votes
2
replies
700
views
NanoStringDiff contrast vectors
NanoStringDiff
updated 2.1 years ago by
James W. MacDonald
67k • written 2.1 years ago by
Paraskevi
• 0
0
votes
0
replies
749
views
NanoStringDiff
DifferentialExpression
NanoStringDiff
3.2 years ago
sanrie10
• 0
5
votes
7
replies
1.9k
views
Nanostringdiff - defining contrast values for blocking variables in glm
limma
edgeR
DESeq2
NanoStringDiff
updated 3.4 years ago by
James W. MacDonald
67k • written 3.4 years ago by
reberya
• 0
3
votes
2
replies
1.2k
views
R NanoStringDiff: DE analysis, from 2 group comparison method how "logFC" generated?
Nan
NanoStringDiff
3.6 years ago
choijamts
• 0
3
votes
6
replies
2.3k
views
Why NanoStringDiff package so slow?
NanoStringDiff
NanoString
nCounter
DE analysis
updated 15 months ago by
georgersmith
• 0 • written 5.5 years ago by
lim6432
▴ 50
0
votes
0
replies
841
views
NanoStringDiff - housekeeping genes variation
NanoStringDiff
3.9 years ago
YM
• 0
1
vote
1
reply
1.1k
views
NanoStringDiff Not Recognized as Numeric
Bioconductor
Transcriptomics
NanoStringDiff
updated 4.3 years ago by
Laurent Gatto
1.6k • written 4.3 years ago by
Pedro
▴ 10
1
vote
7
replies
1.3k
views
NanoStringDiff glm.LRT not finishing after 20 hours
NanoStringDiff
5.0 years ago
stephen.pollo
• 0
0
votes
2
replies
1.1k
views
NanoStringDiff correction for variation between patient
NanoStringDiff
GLM
Gene expression
updated 5.5 years ago by
James W. MacDonald
67k • written 5.5 years ago by
Guillaume Robert
• 0
3
votes
3
replies
1.7k
views
NanoStringDiff counts not numeric
NanoStringDiff
updated 12 months ago by
pjanas
• 0 • written 5.7 years ago by
noelleenright
▴ 10
1
vote
6
replies
2.3k
views
How to access normalized data in the NanoStringDiff package?
nanostringdiff
nanostring
NanoStringDiff
updated 6.7 years ago by
James W. MacDonald
67k • written 6.7 years ago by
casey.rimland
▴ 170
0
votes
0
replies
1.6k
views
design matrix and contrast for paired experiment using NanoStringDiff for nCounter data
nanostring
NanoStringDiff
design and contrast matrix
differential gene expression
ncounter
7.5 years ago
c.kohler
• 0
15 results • Page
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Answer: Using genomicRanges / plyranges to calculate score of peaks within intervals
by
Michael Love
43k
This should be possible with plyranges using `join_overlap` and `group_by` on the metadata from the tile. E.g. create `tile.id` as a variab…
Answer: Reducing and aggregating GRanges with gaps using plyranges
by
Michael Love
43k
I added `min.gapwidth` to `reduce_ranges()` in recent plyranges releases: https://github.com/tidyomics/plyranges/pull/105
Answer: Find exact GRanges match keeping metadata columns
by
Michael Love
43k
You could use `minoverlap` but that requires an integer, not a fraction: ``` gr1 |> join_overlap_left(gr2, minoverlap=6) ``` Plyranges do…
Comment: Unused arguments error without used arguments in GSVA?
by
1sunmic2
• 0
It was due to the comma. Thank you!
Answer: Unused arguments error without used arguments in GSVA?
by
Axel Klenk
★ 1.1k
Hi, here is a good place to ask questions when encountering problems with GSVA. I cannot reproduce this behaviour with the current release…
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Answer: Unused arguments error without used arguments in GSVA?
Answer: Unused arguments error without used arguments in GSVA?
Answer: Unused arguments error without used arguments in GSVA?
Unused arguments error without used arguments in GSVA?
Answer: Is it always preferable to recount library sizes of DGEList object in edgeR afte
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