Showing : dataframe • reset
11
votes
17
replies
2.2k
views
SV4Vectors DataFrame bug with haven_labelled data
S4Vectors DataFrame haven_labelled haven
updated 16 months ago by ▴ 20 • written 17 months ago by ▴ 30
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
6
votes
6
replies
6.0k
views
converting a GRangesList object with different lengths into a data frame
genomicranges grangeslist dataframe irangeslist lists
updated 6.6 years ago by ★ 11k • written 6.6 years ago by ★ 1.5k
1
vote
5
replies
1.4k
views
DESeq2: differential expression analysis from matrix count with gene annotation
deseq2 dataframe pasilla
updated 5.0 years ago by 41k • written 5.0 years ago by ▴ 20
0
votes
5
replies
4.4k
views
Unable to find an inherited method for function distanceToNearest for signature GRanges
chipenrich granges distancetonearest function dataframe
6.5 years ago • updated 6.4 years ago rbronste ▴ 60
2
votes
4
replies
1.4k
views
Generic functions for DataFrames of Rle objects ?
DataFrame Rle generic expression table
updated 9 months ago by 16k • written 6.9 years ago by ▴ 180
0
votes
4
replies
2.5k
views
DESeq2 swap ensembl gene id rownames with gene symbol column
deseq2 dataframe ensembl gene id gene symbol entrezid
4.4 years ago jason.williams • 0
1
vote
3
replies
1.1k
views
Extract specific portion of a string and paste to a new column in R
Rscript tidyr dataframe tidyverse offtopic
updated 20 months ago by 690 • written 21 months ago by • 0
1
vote
2
replies
1.2k
views
Split AME .tsv file into GRanges object or DataFrame
meme ame motif dataframe granges
updated 5.5 years ago by ★ 11k • written 5.5 years ago by ▴ 60
2
votes
2
replies
1.2k
views
getting global Fisher score for overlap of 3 GRanges object by element-wise [solved]
r DataFrame fisher-method
7.8 years ago Jurat Shahidin ▴ 80
2
votes
2
replies
1.2k
views
How to conditionally combine IntegerList in the DataFrame more elegantly?
r iranges integerlist DataFrame
updated 7.5 years ago by ▴ 80 • written 7.5 years ago by • 0
3
votes
2
replies
1.3k
views
matrix as a column of mcols of GRanges would not be extracted correctly by lapply
mcols DataFrame GRanges
updated 6.8 years ago by ★ 11k • written 6.8 years ago by ▴ 30
0
votes
2
replies
1.2k
views
how to build gene.pathway data.frame for non-model organism
limma kegg topgo dataframe edger
6.6 years ago mictadlo ▴ 10
0
votes
2
replies
1.2k
views
DataFrame matrix subsetting
DataFrame subsetting S4Vectors
updated 5.3 years ago by 16k • written 5.3 years ago by • 0
2
votes
2
replies
1.0k
views
DataFrame compatible left_join (merge) operation supporting S4 complex columns that never reorders rows
s4 dataframe left_join merge
updated 5.0 years ago by 16k • written 5.0 years ago by ▴ 90
5
votes
2
replies
908
views
DataFrame after splitting and back
DataFrame S4Vectors
updated 5.0 years ago by ★ 11k • written 5.0 years ago by 1.6k
1
vote
1
reply
794
views
Checking if to DataFrames are identical
S4Vectors DataFrame
4.6 years ago maltethodberg ▴ 170
1
vote
1
reply
1.6k
views
Write the "map" DataFrame from genotypeToSnpMatrix() to a text file
variantannotation DataFrame snpstats
8.4 years ago TimothéeFlutre ▴ 80
0
votes
1
reply
642
views
How to insert a qvalues column in a dataframe with pvalues in R
qvalues dataframe
updated 2.3 years ago by 50k • written 2.3 years ago by • 0
0
votes
0
replies
1.7k
views
stuck on unimplemented type 'list' in 'EncodeElement'
list save dataframe
updated 22 months ago by 3.8k • written 22 months ago by • 0
0
votes
0
replies
756
views
Error in TopologyGSA
topologyGSA dataframe
8.0 years ago saamar.rajput • 0
21 results • Page 1 of 1
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Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350
Is useless the assumption that the majority of genes have no variation in expression (bearing in mind that they are distributed over the en…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0
Hello James, Thank you for your answer and precise exemple ! It is disappointing but makes sense. Best, Alexandre
Comment: How to retrieve gene ontology GO class from gene list? by James W. MacDonald 65k
Yes. The `keys` argument to both `select` and `mapIds` will accept a vector (see `?select` for more information). Also, the [vignette][1] f…
Comment: How to retrieve gene ontology GO class from gene list? by bandconductor • 0
Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
Both `RUVseq` and `sva` are meant to be used to remove technical variability. The problem is the identification of variability that is tech…
Votes
Answer: Cross-species analysis - how to compute the mid parent value?
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
C: null model and DEXSeqDataSet object in DEXSEQ
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