Showing : software error • reset
0
votes
2
replies
922
views
Error in validObject(.Object) : invalid class "CompressedGRangesList" object
software error
updated 10 months ago by • 0 • written 3.3 years ago by • 0
8
votes
8
replies
1.7k
views
msa compilation failure - multiple definition of `GC_jmp_buf' in gc-7.2
software error msa
updated 15 months ago by ▴ 290 • written 2.6 years ago by ▴ 40
2
votes
8
replies
1.2k
views
error in getBM (biomaRt): "error: no such table: metadata"
biomaRt software error
updated 18 months ago by ★ 5.9k • written 2.7 years ago by • 0
0
votes
4
replies
3.2k
views
cannot open fasta file, Error in .Call2("new_input_filexp", filepath, PACKAGE = "XVector")
software error
updated 21 months ago by • 0 • written 2.8 years ago by • 0
0
votes
2
replies
436
views
DepMap copy number
software error depmap
updated 21 months ago by • 0 • written 2.3 years ago by • 0
3
votes
3
replies
13k
views
Unable to install nloptr
software error
updated 22 months ago by ▴ 10 • written 2.4 years ago by • 0
1
vote
2
replies
672
views
How to load the new dataset and gene-sets into singscore package in R
software error
updated 2.1 years ago by • 0 • written 3.3 years ago by • 0
3
votes
4
replies
3.2k
views
ComplexHeatmap installation Error
software error
updated 2.2 years ago by 62k • written 5.8 years ago by • 0
0
votes
3
replies
931
views
Error in Forge the target package (BSgenome)
software error BSgenome
2.4 years ago • updated 2.3 years ago jiazhou0116 • 0
0
votes
4
replies
1.9k
views
Cannot properly finish biomaRt query
software error annotation biomart
updated 2.3 years ago by • 0 • written 2.7 years ago by ▴ 10
0
votes
2
replies
906
views
Error during installation of GEOquery package (R 4.0.3, Bioconduct 3.11)
software error GEOquery
updated 2.3 years ago by 1.6k • written 2.3 years ago by • 0
0
votes
0
replies
431
views
flowCore: gives a "emptyValue" error when / is used as an escape character in .fcs file metadata
software error
2.3 years ago andrea.mcewan • 0
0
votes
1
reply
1.1k
views
Error: Unable to establish connection with R session
software error
updated 2.3 years ago by 1.6k • written 2.3 years ago by • 0
4
votes
5
replies
851
views
how to get exons of multiple genes
software error
2.3 years ago pegah.taklifi ▴ 30
0
votes
4
replies
969
views
Error in GSVA: Error in dimnames(x) <- dn
software error
2.3 years ago ElaM • 0
0
votes
4
replies
689
views
Viper error while creating Regulon object from minet adjacency matrix file ?
software error
updated 4 months ago by • 0 • written 2.3 years ago by • 0
0
votes
1
reply
486
views
Vignette Run Time
software error
updated 2.3 years ago by 25k • written 2.3 years ago by ▴ 10
3
votes
2
replies
1.0k
views
Failed to install 'MetaboAnalystR' from GitHub
software error MetaboAnalystR mzR
updated 2.4 years ago by 1.6k • written 2.4 years ago by • 0
0
votes
0
replies
375
views
vcountPDict Out-of-Memory Errors
software error Biostrings
2.4 years ago jennyl.smith12 • 0
1
vote
1
reply
546
views
About generating a seed file (DCF format) for forging a BSgenome
software error BSgenome
updated 2.4 years ago by 16k • written 2.4 years ago by • 0
0
votes
4
replies
2.0k
views
DESeq2 installation in R
software error
updated 2.4 years ago by 25k • written 2.4 years ago by • 0
1
vote
1
reply
752
views
Error with view.molecule.2d function in rcdk
software error rcdk view.molecule.2d ViewMolecule2DTable
updated 2.4 years ago by 3.7k • written 2.4 years ago by • 0
0
votes
2
replies
844
views
Error in installing org.Hs.eg.db
software error org.Hs.eg.db win10
updated 2.4 years ago by 25k • written 2.4 years ago by • 0
3
votes
12
replies
1.4k
views
DESeq2 Installation Errors
deseq2 software error
updated 5 months ago by • 0 • written 2.4 years ago by • 0
0
votes
2
replies
649
views
Error in installing ChemmineOB
software error ChemmineOB rand.h macOS
updated 2.4 years ago by • 0 • written 2.4 years ago by • 0
1
vote
2
replies
518
views
error in forgeBSgenomeDataPkg
software error
updated 2.4 years ago by 62k • written 2.4 years ago by • 0
2
votes
3
replies
536
views
Error in topGO analysis
software error topGO go
updated 2.4 years ago by 3.7k • written 2.4 years ago by • 0
0
votes
3
replies
547
views
Use xcms but mzR occurs error
software error xcms
updated 2.4 years ago by 3.7k • written 2.4 years ago by • 0
2
votes
2
replies
1.0k
views
BiocParallel : unable to find an inherited method for function 'bplapply' for signature '"integer", "call"'
software error
updated 2.4 years ago by 25k • written 2.4 years ago by ▴ 140
0
votes
4
replies
834
views
Error with xcms - requiring MSnbase 2.15.3 but not installing
software error xcms MSnbase
updated 2.5 years ago by 1.6k • written 2.5 years ago by • 0
7
votes
2
replies
3.1k
views
Help in installing certain pacakges
software error install
updated 2.5 years ago by 25k • written 2.5 years ago by ▴ 40
0
votes
3
replies
638
views
Unable to install ffbase
software error
updated 2.5 years ago by 25k • written 2.5 years ago by • 0
5
votes
4
replies
953
views
DESeq2 question about use of DESeqDataSetFromTximport() from RSEM data
deseq2 software error
updated 2.5 years ago by 39k • written 2.5 years ago by ▴ 10
1
vote
6
replies
2.0k
views
DEP package: Problems installing on macOS
software error DEP proteomics
updated 2.5 years ago by 1.6k • written 2.5 years ago by • 0
0
votes
0
replies
290
views
Dispersions Error in DEXSEQ
software error
2.6 years ago huck.thornton ▴ 10
0
votes
3
replies
651
views
Cant update old packages
software error packages update
updated 2.6 years ago by 62k • written 2.6 years ago by • 0
4
votes
5
replies
746
views
Installing DESeq2 fails ; R can't find basic commands like 'rm' and 'mv'
deseq2 install software error
2.6 years ago mja18 ▴ 40
0
votes
0
replies
327
views
makeBSseqData problem versions
software error
updated 2.6 years ago by 3.4k • written 2.6 years ago by • 0
0
votes
0
replies
760
views
In serialize(data, node$con)
software error
2.6 years ago thomas.boegl • 0
1
vote
4
replies
789
views
Question: org.Hs.eg.db can not be downloaded
software error
2.6 years ago liuzhizheng1996 • 0
0
votes
0
replies
359
views
Error in data.frame(ASSIGN = "ASSIGN parameters", version = as.character(utils::packageVersion("ASSIGN")), : arguments imply differing number of …
software error assign
2.6 years ago yueli7 ▴ 20
1
vote
7
replies
633
views
Question:Error installing BiocManager::install("org.Hs.eg.db") package.
software error
updated 2.6 years ago by 3.7k • written 2.6 years ago by • 0
6
votes
5
replies
453
views
Security process for Bioconductor
software error
updated 2.6 years ago by 25k • written 2.6 years ago by ▴ 30
0
votes
2
replies
17k
views
Installing EnhancedVolcano package in R
microarray software error
updated 2.6 years ago by 3.7k • written 2.6 years ago by • 0
0
votes
4
replies
2.1k
views
ggplot2 of PCA
software error ggplot2
updated 2.6 years ago by • 0 • written 2.6 years ago by ▴ 20
4
votes
4
replies
3.4k
views
plotPCA in DESeq2
software error deseq2
2.6 years ago yueli7 ▴ 20
5
votes
11
replies
806
views
Rsubread: change in behavior when accepting mixed paired end and single end files
software error Rsubread
updated 2.6 years ago by 47k • written 2.6 years ago by • 0
2
votes
20
replies
1.4k
views
plotPCA in DESeq2
software error deseq2
2.6 years ago yueli7 ▴ 20
2
votes
2
replies
467
views
biomart webservice error when using data from Phytozome
software error go
2.6 years ago e.lopez-cortegano • 0
0
votes
4
replies
366
views
DEXSEQ error (no counts falling in this gene, there is nothing to plot).
software error
updated 2.6 years ago by 3.7k • written 2.6 years ago by ▴ 10
50 results • Page 1 of 1
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Answer: struggling to create a heatmap by ATpoint ★ 2.1k
I am reluctant to read through that wall of code. Here is what would work. Note that prefiltering makes sense before, not after running `DE…
Answer: collapseReplicates error after tximeta by Michael Love 39k
The issue is that `collapseReplicates` just collapses `counts` and doesn't account for multiple assays which you need for e.g. Swish or oth…
Comment: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it by ATpoint ★ 2.1k
That having said, I recommend to inspect the MA-plots (`plotMA()`), at best the ones produced right from `res <- results(dds); plotMA(res)`…
Answer: Which genes are outliers in DESeq2? by ATpoint ★ 2.1k
You can take over some of the lines from `results()` to find them easily: ```r suppressPackageStartupMessages(library(DESeq2)) set.s…
Answer: Which genes are outliers in DESeq2? by Michael Love 39k
Outliers will have high maxCooks values in `mcols(dds)` -- the threshold is `qf(.99, p, n - p)` where n is sample size and p is number of c…
Votes
Significant reporter activity with mpralm function
Answer: I cannot install annotables package in Rstudio (macOS)
Answer: log2 of normalized counts for further analyzes
Answer: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it
Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it should *not* be used
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