Showing : S4Vectors • reset
11
votes
17
replies
2.3k
views
SV4Vectors DataFrame bug with haven_labelled data
S4Vectors DataFrame haven_labelled haven
updated 17 months ago by ▴ 20 • written 17 months ago by ▴ 30
10
votes
10
replies
2.4k
views
Does package S4Vectors break ifelse?
S4Vectors ifelse
updated 6.8 years ago by ▴ 40 • written 8.7 years ago by ★ 3.0k
5
votes
3
replies
3.7k
views
Add new columns to DESeqResults from text file by matching rownames.
deseq2 deseq merge data frames cbind s4vectors
updated 6.6 years ago by 41k • written 6.6 years ago by ▴ 10
5
votes
5
replies
1.4k
views
How to extract out wanted IntegerList more elegantly from nested list?
r s4vectors integerlist iranges
updated 7.6 years ago by ★ 11k • written 7.6 years ago by • 0
5
votes
6
replies
651
views
DataFrame Construction With Non-standard Column
S4Vectors
updated 7 months ago by 16k • written 7 months ago by ★ 1.5k
5
votes
10
replies
2.2k
views
caught segfault error when loading S4Vectors package in R
R S4Vectors segfault
updated 5.2 years ago by 25k • written 5.2 years ago by ▴ 20
5
votes
2
replies
917
views
DataFrame after splitting and back
DataFrame S4Vectors
updated 5.0 years ago by ★ 11k • written 5.0 years ago by 1.6k
4
votes
10
replies
2.2k
views
Printing DataFrame with nested DataFrames causes error
s4vectors dataframe
updated 7.2 years ago by 16k • written 7.2 years ago by ▴ 70
4
votes
4
replies
1.2k
views
S4Vectors masking utils::findMatches is returning warnings in R 4.3 / Bioconductor 3.17
S4Vectors
written 12 months ago by ▴ 90
4
votes
6
replies
1.5k
views
breakTies for a Hits-object based on value in mcols?
s4vectors hits
updated 6.4 years ago by ★ 11k • written 6.4 years ago by ▴ 180
4
votes
1
reply
1.0k
views
Why is "SimpleList" not inheriting "list" ?
S4Vectors
updated 2.3 years ago by 16k • written 2.4 years ago by ▴ 180
3
votes
12
replies
2.1k
views
S4Vectors and subectHits error
s4vectors copywriter
updated 6.0 years ago by ★ 11k • written 6.0 years ago by ▴ 200
3
votes
2
replies
1.7k
views
Proper way to read in a DataFrame with CharacterList columns that was saved to a text file
s4vectors genomicranges
updated 7.9 years ago by ★ 11k • written 7.9 years ago by ★ 1.0k
3
votes
12
replies
2.5k
views
Trouble installing GOSemSim
GOSemSim S4Vectors
5.1 years ago sergi.picart ▴ 20
3
votes
1
reply
1.1k
views
shiftApply verbosity (in ChIPQC)
ChIPQC s4vectors
updated 8.0 years ago by ▴ 420 • written 8.2 years ago by ▴ 140
3
votes
5
replies
1.7k
views
How can I coerce "list" to S4 "List" (reproducible example is available)?
coercion data manipulation s4vectors List
7.8 years ago Jurat Shahidin ▴ 80
3
votes
8
replies
2.5k
views
S4Vectors masks/breaks regular Matrix functions
S4Vectors Matrix
7.2 years ago peter.kharchenko ▴ 30
3
votes
2
replies
2.6k
views
Convert DataFrame to data.frame While Keeping Column Name Syntax
S4Vectors
updated 2.9 years ago by 65k • written 2.9 years ago by ★ 1.5k
2
votes
2
replies
2.1k
views
Problem when installing DESeq on MAC OS X
s4vectors mac os x deseq
updated 8.2 years ago by ★ 13k • written 8.2 years ago by • 0
2
votes
1
reply
890
views
Adding a column to a class that contains DataFrame
s4vectors
6.3 years ago Michael Love 41k
2
votes
3
replies
1.6k
views
Is there an easy way to extend coverage to seqlengths and fill with zeroes?
coverage s4vectors seqlengths
8.2 years ago liz.ingsimmons ▴ 140
2
votes
1
reply
278
views
DataFrame Printing User Control
S4Vectors
updated 5 months ago by 16k • written 5 months ago by ★ 1.5k
2
votes
3
replies
1.5k
views
"Packages required but not available." rtracklayer in OSX is not available to CRAN, resulting in errors for downstream dependencies.
GenomicRanges rtracklayer VariantAnnotation S4Vectors SummarizedExperiment
updated 4.8 years ago by ★ 13k • written 4.8 years ago by ▴ 30
2
votes
9
replies
1.7k
views
S4Vectors not loading
S4Vectors
4.2 years ago Panos Balomenos • 0
2
votes
1
reply
874
views
DataFrame or DFrame
S4Vectors
updated 2.9 years ago by 690 • written 2.9 years ago by ★ 1.5k
2
votes
2
replies
2.0k
views
Error in installation of scran
S4Vectors IRanges XVector GenomicRanges scran
updated 5.3 years ago by ★ 28k • written 5.3 years ago by • 0
2
votes
0
replies
709
views
News: BioC2021 organizing committee
BioC2021 S4Vectors
3.5 years ago Levi Waldron ★ 1.1k
2
votes
1
reply
939
views
Question about parallel manipulation on CharacterList objects
s4vectors IRanges
updated 7.6 years ago by 25k • written 7.6 years ago by ▴ 450
2
votes
3
replies
925
views
S4Vectors, strange metadata behavior
GRangesList S4Vectors
updated 2.5 years ago by 16k • written 2.5 years ago by ▴ 80
1
vote
7
replies
2.3k
views
What to do when all the installation methods for a package fail (pagoo)?
S4Vectors pagoo
22 months ago MauriAndres • 0
1
vote
11
replies
1.7k
views
Error uploading deseq2
deseq2 S4Vectors
updated 4.1 years ago by 25k • written 4.1 years ago by • 0
1
vote
2
replies
1.4k
views
Error running table() on an RleList returned by coverage()
GenomicRanges S4Vectors
updated 9.6 years ago by 16k • written 9.6 years ago by ★ 5.2k
1
vote
4
replies
1.7k
views
IRanges missing S4Vectors_defines.h
iranges s4vectors
updated 9.1 years ago by 16k • written 9.1 years ago by ▴ 10
1
vote
2
replies
3.3k
views
Error in installation S4Vectors package
s4vectors
updated 8.4 years ago by ★ 8.2k • written 8.4 years ago by • 0
1
vote
1
reply
5.2k
views
Error trying to install GenomicRanges
cummerbund rtracklayer genomicranges s4vectors iranges
updated 8.3 years ago by ★ 6.5k • written 8.3 years ago by • 0
1
vote
1
reply
955
views
Bug report: unpredictable coloumn ranaming in DataFrame class
S4Vectors
updated 7.0 years ago by ★ 11k • written 7.0 years ago by • 0
1
vote
0
replies
1.3k
views
Issue with bumphunter and TxDb.Hsapiens.UCSC.hg38.knownGene that could be due to S4Vectors or an installation problem
s4vectors bumphunter txdb.hsapiens.ucsc.hg38.knowngene
6.6 years ago Leonardo Collado Torres ★ 1.0k
1
vote
2
replies
1.7k
views
Installation problem, S4Vectors, something about "apply_hotfix73465" not found
package installation s4vectors
updated 6.6 years ago by 25k • written 6.6 years ago by • 0
1
vote
4
replies
2.5k
views
biocLite updating problem with Ubuntu 17.10
ubuntu biocgenerics s4vectors IRanges annotationdbi
updated 6.4 years ago by 25k • written 6.4 years ago by • 0
1
vote
3
replies
1.6k
views
Correct way to split and unsplit a DataFrame
s4vectors iranges
updated 4.7 years ago by ★ 11k • written 4.7 years ago by ▴ 90
1
vote
1
reply
800
views
Checking if to DataFrames are identical
S4Vectors DataFrame
4.7 years ago maltethodberg ▴ 180
0
votes
2
replies
563
views
Using dplyr commands with DataFrame objects
S4Vectors
6 months ago GE • 0
0
votes
1
reply
70
views
Version 3.15 S4Vectors packages are missing
S4Vectors
updated 4 days ago by 3.9k • written 4 days ago by • 0
0
votes
1
reply
769
views
Why does S4Vectors define three functions for Vector -> data.frame coercion
S4Vectors methods
4.7 years ago Aditya ▴ 160
0
votes
7
replies
3.3k
views
GenomicRanges requires S4Vectors 0.23.19 when 0.22.1 installs from BiocManager
S4Vectors GenomicRanges BiocManager
4.6 years ago james.dalgleish ▴ 30
0
votes
4
replies
1.7k
views
Unexpected behaviour of set operations on GRanges objects when dplyr is loaded
GenomicRanges S4Vectors dplyr
updated 5.3 years ago by 65k • written 5.3 years ago by ▴ 140
0
votes
1
reply
1.5k
views
Is S4Vectors not able to install in R-3.5.1?
S4Vectors R-3.5.1
5.4 years ago zhang303 • 0
0
votes
4
replies
1.6k
views
‘parallel_slot_names’ is not exported by 'namespace:S4Vectors'
S4Vectors
updated 3.4 years ago by 16k • written 3.4 years ago by • 0
0
votes
1
reply
3.2k
views
problem in loading Deseq2
deseq2 S4Vectors
updated 5.4 years ago by 25k • written 5.4 years ago by • 0
0
votes
6
replies
1.5k
views
Error: duplicate row.names
GenomicRanges methylKit S4Vectors
updated 2.1 years ago by 65k • written 2.1 years ago by • 0
50 results • Page 1 of 1
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Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2 by Kim • 0
Thank you Tim, this is a great help in getting me started!
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
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