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rle
•
reset
2
votes
1
reply
1.4k
views
deseq2 RLE normalization
RLE
normalization
deseq2
updated 20 months ago by
ATpoint
★ 4.5k • written 20 months ago by
SH
▴ 10
0
votes
1
reply
1.1k
views
Resources to learn about s4 object extension/inheritance, custom print methods, and new operations
S4
Rcpp
InteractionSet
IRanges
Rle
updated 4.4 years ago by
Aaron Lun
★ 28k • written 4.4 years ago by
lklei001
• 0
0
votes
1
reply
1.9k
views
RLE plot of DESeq2 normalisation / extract matrix of normalised counts from DESeqDataSet
deseq2
RLE
updated 4.7 years ago by
Michael Love
42k • written 4.7 years ago by
f_pardow
• 0
0
votes
2
replies
1.4k
views
Error: invalid class "VRanges" object
variantannotation
VRanges
R
Rle
updated 6.4 years ago by
Valerie Obenchain
★ 6.8k • written 6.4 years ago by
Jayendra Shinde
• 0
0
votes
0
replies
1.1k
views
Avoid rotating vector when doing arithmetic on different length IRanges RleList entries
iranges
s4vectors
rle
rlelist
6.4 years ago
endrebak85
▴ 40
1
vote
1
reply
3.4k
views
What does the relative-log expression normalization mean in the deseq2 wrapper function ?
rle
deseq2
normalization
updated 6.5 years ago by
Michael Love
42k • written 6.5 years ago by
Aurora
▴ 20
1
vote
1
reply
1.3k
views
Subsetting Rle with ORF-sequence-positions by the 3 frames
Rle
Big data
coverageByTranscript
6.6 years ago • updated 6.5 years ago
hauken_heyken
▴ 80
7
votes
4
replies
1.8k
views
From RleList to RleArray
delayedarray
rlelist
rle
updated 7.0 years ago by
Peter Hickey
▴ 740 • written 7.0 years ago by
davide risso
▴ 980
2
votes
4
replies
1.6k
views
Generic functions for DataFrames of Rle objects ?
DataFrame
Rle
generic
expression table
updated 16 months ago by
Hervé Pagès
16k • written 7.4 years ago by
Charles Plessy
▴ 180
0
votes
3
replies
1.8k
views
Efficiently construct GRanges/IRanges from Rle vector
Rle
granges
iranges
8.1 years ago
my4
▴ 10
0
votes
1
reply
1.8k
views
Efficient coverage calculation with RleList and GRanges
granges
Rle
coverage
View
mean
updated 8.3 years ago by
Michael Lawrence
★ 11k • written 8.3 years ago by
Christian Ruckert
▴ 170
6
votes
3
replies
2.8k
views
how does coverage() works
biostrings
coverage
rle
iranges
8.4 years ago
likeeatingpizza
▴ 10
0
votes
1
reply
1.5k
views
extract RLE normalized table
rle
normalization
table
updated 9.1 years ago by
Steve Lianoglou
★ 13k • written 9.1 years ago by
aiko
• 0
3
votes
7
replies
2.2k
views
Add up RLEs that are in lists?
RLE
GenomicFeatures
rnaseq
updated 9.6 years ago by
Hervé Pagès
16k • written 9.6 years ago by
gen
▴ 30
2
votes
6
replies
2.9k
views
Shrink or Expand RLE
RLE
iranges
granges
coverage
updated 9.6 years ago by
Martin Morgan
25k • written 9.6 years ago by
gen
▴ 30
2
votes
4
replies
2.1k
views
summing integer RLE
rle
list
irange
grangeslist
updated 9.6 years ago by
Chris Seidel
▴ 80 • written 9.6 years ago by
gen
▴ 30
1
vote
2
replies
1.3k
views
Summary statistics of RleListViews object
rle
Views
9.7 years ago
Sean Davis
21k
2
votes
5
replies
1.6k
views
making a RleViewsList object gets slow with many chromosomes
views
iranges
rle
9.7 years ago
Janet Young
▴ 740
1
vote
1
reply
2.5k
views
Computing NUSE and RLE scores
affyPLM
RLE
NUSE
updated 9.8 years ago by
Sean Davis
21k • written 9.8 years ago by
beverly893
▴ 10
0
votes
2
replies
1.3k
views
boxplot on an Rle object?
Rle
boxplot
9.8 years ago
Johannes Rainer
★ 2.1k
20 results • Page
1 of 1
Recent ...
Replies
Comment: ESTMATE, MCPcounter, EPIC, xCell input
by
Kang
• 0
These are not, as far as I know, bioconductor packages. You should query on the websites for those specific software programs. @[mapquest][…
Comment: Robust way of dealing with low number of samples for Differential Gene Expressio
by
Kang
• 0
I believe that pseudo-bulking is a strong way to approach DE, as long as it is possible to reliably identify the cell type across data and …
Comment: GOstats kegg analysis in wheat - help - none of the objects in the first column
by
GV Yoshikawa
• 0
Thank you for the reply. I tried swapping columns before asking, it made no difference. head(keggframeData) path_id kegg…
Answer: Differential Expression Analysis with unbalanced batches without replication bet
by
Gordon Smyth
51k
> Is there an alternative model or approach in tools like edgeR, limma-voom, or DESeq2 or any other that can handle confounded batch effect…
Comment: BiomaRt Possible Ensembl SSL connectivity problems detected.
by
Adam
• 0
I just found this workaround: httr::set_config(config(ssl_verifypeer = FALSE, ssl_verifyhost = FALSE)) at [this Stack Overflow link][…
Votes
A: Up/Down Regulated GeneList from edgeR and R
A: Up/Down Regulated GeneList from edgeR and R
A: Down/Up-regulated genes asymmetry in edgeR differential expression analysis
Answer: Combining RNAseq and microarray data using edgeR/limma-voom
Answer: How do I merge a list of GRanges?
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shepherl
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