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rle
•
reset
2
votes
1
reply
1.7k
views
deseq2 RLE normalization
RLE
normalization
deseq2
updated 2.1 years ago by
ATpoint
★ 4.8k • written 2.1 years ago by
SH
▴ 10
0
votes
1
reply
1.3k
views
Resources to learn about s4 object extension/inheritance, custom print methods, and new operations
S4
Rcpp
InteractionSet
IRanges
Rle
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
lklei001
• 0
0
votes
1
reply
2.2k
views
RLE plot of DESeq2 normalisation / extract matrix of normalised counts from DESeqDataSet
deseq2
RLE
updated 5.1 years ago by
Michael Love
43k • written 5.1 years ago by
f_pardow
• 0
0
votes
2
replies
1.5k
views
Error: invalid class "VRanges" object
variantannotation
VRanges
R
Rle
updated 6.8 years ago by
Valerie Obenchain
★ 6.8k • written 6.8 years ago by
Jayendra Shinde
• 0
0
votes
0
replies
1.2k
views
Avoid rotating vector when doing arithmetic on different length IRanges RleList entries
iranges
s4vectors
rle
rlelist
6.8 years ago
endrebak85
▴ 40
1
vote
1
reply
3.7k
views
What does the relative-log expression normalization mean in the deseq2 wrapper function ?
rle
deseq2
normalization
updated 6.9 years ago by
Michael Love
43k • written 6.9 years ago by
Aurora
▴ 20
1
vote
1
reply
1.4k
views
Subsetting Rle with ORF-sequence-positions by the 3 frames
Rle
Big data
coverageByTranscript
7.0 years ago
hauken_heyken
▴ 80
7
votes
4
replies
1.9k
views
From RleList to RleArray
delayedarray
rlelist
rle
updated 7.4 years ago by
Peter Hickey
▴ 750 • written 7.4 years ago by
davide risso
▴ 980
2
votes
4
replies
1.8k
views
Generic functions for DataFrames of Rle objects ?
DataFrame
Rle
generic
expression table
updated 21 months ago by
Hervé Pagès
16k • written 7.9 years ago by
Charles Plessy
▴ 180
0
votes
3
replies
2.0k
views
Efficiently construct GRanges/IRanges from Rle vector
Rle
granges
iranges
8.5 years ago
my4
▴ 10
0
votes
1
reply
1.9k
views
Efficient coverage calculation with RleList and GRanges
granges
Rle
coverage
View
mean
updated 8.8 years ago by
Michael Lawrence
★ 11k • written 8.8 years ago by
Christian Ruckert
▴ 170
6
votes
3
replies
3.1k
views
how does coverage() works
biostrings
coverage
rle
iranges
8.8 years ago
likeeatingpizza
▴ 10
0
votes
1
reply
1.6k
views
extract RLE normalized table
rle
normalization
table
updated 9.5 years ago by
Steve Lianoglou
★ 13k • written 9.5 years ago by
aiko
• 0
3
votes
7
replies
2.4k
views
Add up RLEs that are in lists?
RLE
GenomicFeatures
rnaseq
updated 10.0 years ago by
Hervé Pagès
16k • written 10.0 years ago by
gen
▴ 30
2
votes
6
replies
3.1k
views
Shrink or Expand RLE
RLE
iranges
granges
coverage
updated 10.0 years ago by
Martin Morgan
25k • written 10.0 years ago by
gen
▴ 30
2
votes
4
replies
2.3k
views
summing integer RLE
rle
list
irange
grangeslist
updated 10.0 years ago by
Chris Seidel
▴ 80 • written 10.0 years ago by
gen
▴ 30
1
vote
2
replies
1.4k
views
Summary statistics of RleListViews object
rle
Views
10.1 years ago
Sean Davis
21k
2
votes
5
replies
1.7k
views
making a RleViewsList object gets slow with many chromosomes
views
iranges
rle
10.2 years ago • updated 10.1 years ago
Janet Young
▴ 740
1
vote
1
reply
2.6k
views
Computing NUSE and RLE scores
affyPLM
RLE
NUSE
updated 10.2 years ago by
Sean Davis
21k • written 10.2 years ago by
beverly893
▴ 10
0
votes
2
replies
1.4k
views
boxplot on an Rle object?
Rle
boxplot
10.2 years ago
Johannes Rainer
★ 2.1k
20 results • Page
1 of 1
Recent ...
Replies
Comment: DESeq2 - human data, weird results, troubleshooting
by
bd2000
▴ 30
I didn't include all of my code the post would be too long. Here's a link to my GitHub if anyone would like to see the full code: [Full Rst…
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
James W. MacDonald
68k
The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
ATpoint
★ 4.8k
> since there doesn't seem to be as much count variability, No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…
Comment: Ensembl site unresponsive via biomaRt
by
darylruiz6545
• 0
Thank you so much for sharing the link.
Comment: compute_fasta_digest does not match Salmon index hash
by
Alex
• 0
I use the `fastaDigest` tool from [COMBINE-lab/fastaDigest](https://github.com/COMBINE-lab/FastaDigest/), which has the function `compute_f…
Votes
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
Two EPIC Methylation Array Analysis Questions
How to get DMR for Infinium methylation EPIC v2
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
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