Showing : bug • reset
0
votes
9
replies
3.4k
views
rhdf5 32-bit unsigned int issue
rhdf5 bug
updated 8.8 years ago by ▴ 550 • written 8.9 years ago by • 0
21
votes
24
replies
13k
views
Problem with biomart's listMarts function
biomart bug
updated 8.0 years ago by ▴ 470 • written 8.5 years ago by ★ 2.0k
1
vote
13
replies
3.0k
views
Several issues with the package easyRNASeq
easyrnaseq bug
8.8 years ago Michael Dondrup ▴ 10
1
vote
6
replies
4.1k
views
Gviz issue: crashing when AnnotationTrack( ... , just.group="above")
software error bug crash Gviz
updated 7.7 years ago by ★ 1.6k • written 7.9 years ago by ▴ 160
3
votes
3
replies
2.6k
views
Transcripts in TxDb.Hsapiens.UCSC.hg38.knownGene but not in ucsc genome brower
annotation txdb.hsapiens.ucsc.hg38.knowngene bug
7.6 years ago • updated 7.5 years ago shilin.zhao ▴ 40
6
votes
3
replies
2.1k
views
Possible bug in Rsubread Phred-Score read
rsubread bug alignment
updated 9.5 years ago by ★ 3.6k • written 9.5 years ago by ▴ 20
0
votes
4
replies
1.7k
views
beadarray: readIllumina with sample sheet broken due to Illumina switching to 12 digit chip identifiers
beadarray bug illumina human ht-12 v4 illumina beadchip
updated 7.0 years ago by ★ 1.1k • written 7.0 years ago by • 0
1
vote
3
replies
1.2k
views
Unable to set colors in plotrt function in xcms package
xcms bug
9.0 years ago Johannes Rainer ★ 2.0k
3
votes
5
replies
1.7k
views
Selecting few ids from reactome.db
annotationdbi reactome.db bug
updated 7.4 years ago by 25k • written 7.4 years ago by ▴ 730
0
votes
6
replies
5.7k
views
DESeq2 1.6 mcols error
deseq2 bug
updated 9.4 years ago by • 0 • written 9.5 years ago by • 0
3
votes
2
replies
1.6k
views
EBImage read png causes R to crash
ebimage bug
8.5 years ago • updated 8.4 years ago Henning Redestig ▴ 20
0
votes
4
replies
1.3k
views
Inconsistent geo_char for rse_tx
bug recount
5.3 years ago • updated 4.5 years ago Jacques.van-Helden • 0
1
vote
2
replies
1.2k
views
BiocCheck path escape issue
bioccheck bug
7.0 years ago Michael Steinbaugh ▴ 90
5
votes
16
replies
2.3k
views
GSVA package scores are opposite on mac and windows
GSVA bug gsva bugs
updated 6.6 years ago by ★ 3.3k • written 6.6 years ago by ▴ 10
0
votes
2
replies
1.7k
views
Problem with GeneSetCollection after updating R devel packages.
bug gseabase example
7.2 years ago jcrodriguez ▴ 20
2
votes
3
replies
1.2k
views
Probable bug in GSEABase package.
software error bug gseabase
7.3 years ago jcrodriguez ▴ 20
0
votes
3
replies
1.4k
views
possible conflict between renameSeqLevels (TxDb) and isActiveSeq (TxDb)
bug txdb genomicfeatures
8.7 years ago • updated 8.6 years ago Robert K. Bradley ▴ 40
1
vote
2
replies
1.9k
views
Error when using multiple heatmaps in ComplexHeatmaps
ComplexHeatmap bug
7.3 years ago brt381 • 0
0
votes
2
replies
4.9k
views
Possible bug in Biostrings::readAAStringSet
bug biostrings readAAStringSet
updated 7.6 years ago by ★ 1.2k • written 7.6 years ago by • 0
1
vote
5
replies
588
views
Manual creation of qPCRset does not work
bug nondetects HTqPCR
updated 6 months ago by • 0 • written 7 months ago by ▴ 230
3
votes
2
replies
1.4k
views
Bug: estimateSizeFactors in DESeq2 doesn't work with a single normalization control
deseq2 bug
updated 9.2 years ago by 41k • written 9.2 years ago by ★ 2.0k
0
votes
6
replies
1.9k
views
rtracklayer issue: Tracks don't show up
rtracklayer bug session
updated 9.0 years ago by ★ 11k • written 9.0 years ago by • 0
0
votes
1
reply
1.3k
views
GO.db/GOSim bugged or my bad?
go.db software error bug
updated 9.0 years ago by 16k • written 9.0 years ago by ▴ 10
0
votes
1
reply
885
views
Identical() fails in Biostrings package
biostrings bug
updated 8.9 years ago by 16k • written 8.9 years ago by ▴ 20
1
vote
5
replies
1.9k
views
biomaRt crashes when result contains missing values
biomaRt bug
updated 7.8 years ago by ★ 6.5k • written 7.8 years ago by • 0
0
votes
3
replies
1.3k
views
rtracklayer v1.30.0 can no longer import gff files
rtracklayer import.gff3 bug
updated 8.5 years ago by 16k • written 8.5 years ago by ★ 2.0k
2
votes
1
reply
1.2k
views
Bug Report for R Package "EBImage": log(image, base=2) is same as log(*) (natural log) instead of log2 (base 2).
bug ebimage
updated 8.5 years ago by ▴ 750 • written 8.5 years ago by ▴ 20
0
votes
1
reply
1.2k
views
BiocParallel-1.4.0 bplapply bug when using nested lists and MulticoreParam
biocparallel bug
updated 8.4 years ago by ★ 6.8k • written 8.4 years ago by • 0
1
vote
2
replies
1.2k
views
Downloading bt.exon_quantification with TCGAbiolinks
tcgabiolinks bug
8.0 years ago Marcel Ramos 690
1
vote
2
replies
1.5k
views
TCGAbiolinks 403 Forbidden Error
bug issue tcgabiolinks
updated 7.8 years ago by ▴ 270 • written 7.9 years ago by 690
1
vote
1
reply
1.7k
views
GSEABase getGmt() fails when more than 1 line contains duplicates
gseabase bug
updated 7.6 years ago by 25k • written 7.6 years ago by ▴ 10
0
votes
2
replies
1.2k
views
class "AsIs" is not valid for @'dataset' in an object of class "Mart"; is(value, "character")
bug biomart
7.4 years ago Philip Lijnzaad ▴ 160
2
votes
4
replies
2.1k
views
topGO crashes with ' argument "annotationFun" is missing, with no default'
bug topGO
updated 7.4 years ago by 65k • written 7.4 years ago by ▴ 160
3
votes
4
replies
1.6k
views
Different geneset same p-values in topGO
topgo bug
7.3 years ago • updated 3.6 years ago Lluís Revilla Sancho ▴ 730
1
vote
2
replies
1.4k
views
Error in Biostrings with Fastafiles using the carriage return <cr>
biostrings software error bug
updated 7.2 years ago by 16k • written 7.3 years ago by • 0
3
votes
2
replies
2.5k
views
Rqc - envir must be either NULL, a list, or an environment.
software error bug library
updated 7.2 years ago by ▴ 70 • written 7.3 years ago by ▴ 10
9
votes
2
replies
8.8k
views
Using RSEM with tximport and DESeq2
deseq2 tximport software error bug
updated 2.6 years ago by 41k • written 7.2 years ago by ▴ 10
3
votes
4
replies
1.2k
views
Does Rsamtools support tag names with number characters? i.e ."B1"
rsamtools bug
updated 7.1 years ago by 25k • written 7.1 years ago by • 0
3
votes
2
replies
1.4k
views
Crash GSVA 1.24.0 with bootstrapping
GSVA bug
updated 7.0 years ago by ★ 3.3k • written 7.0 years ago by ▴ 20
3
votes
2
replies
1.9k
views
coverage() output SimpleRleList cannot be converted to GRanges
bug genomicranges granges rlelist coverage
updated 6.2 years ago by 16k • written 6.2 years ago by ▴ 10
2
votes
1
reply
1.5k
views
Possible bug: outdated result from listDatabases()
KEGGREST bug
updated 6.7 years ago by ▴ 50 • written 6.7 years ago by • 0
0
votes
1
reply
915
views
GenomicRanges: Possible Bug
genomicranges bug
updated 6.6 years ago by 65k • written 6.6 years ago by • 0
0
votes
13
replies
1.9k
views
R 3.5.0/Bioconductor version 3.6: OS-dependent behavior divergence for list concatenation of SummarizedExperiment
summarizedexperiment bug 3.5.0
updated 6.0 years ago by 65k • written 6.0 years ago by • 0
1
vote
1
reply
1.0k
views
rTandem compilation failed
rtandem bug compilation error
5.9 years ago Ed Siefker ▴ 230
0
votes
1
reply
1.1k
views
DelayedArray install fails to UNC path
delayedarray bug installation
updated 5.7 years ago by 25k • written 5.8 years ago by • 0
0
votes
7
replies
2.2k
views
DEXSeqHTML getListElement GRanges error
dexseq software error bug
updated 5.4 years ago by ▴ 140 • written 5.5 years ago by • 0
0
votes
1
reply
1.0k
views
A recent update to readr cause issues loading data with GEOquery 2.50.0
version compatibility bug
updated 5.4 years ago by ★ 13k • written 5.4 years ago by • 0
0
votes
5
replies
914
views
GenomicFeatures supportedUCSCFeatureDbTracks never returns and has to be terminated with C-c
genomicfeatures bug
updated 5.4 years ago by 65k • written 5.4 years ago by ★ 1.6k
0
votes
3
replies
899
views
collapseReplicates changes order of factors
deseq2 bug
5.4 years ago António Miguel de Jesus Domingues ▴ 510
4
votes
2
replies
831
views
TENxPBMCData error loading PBMC4k data
bug TENxPBMCData
3.5 years ago zhe ▴ 20
50 results • Page 1 of 1
Recent ...
Replies
Answer: log2FoldChange value is way too different when compared with counts(dds) by Michael Love 41k
This has been asked before, but with a multi factor design, the LFC for coefficient X adjust for the others, in a way that is often hard to…
Answer: Get genomic coordinates of CpGs sites (chromosomes, genomic position) by James W. MacDonald 65k
You don't say what array that is, so I will guess. ``` > library(IlluminaHumanMethylationEPICanno.ilm10b4.hg19) > Locations DataFrame…
Answer: SGSeq: moving toward diffex from SGSeq analysis by Leonard Goldstein ▴ 200
`vid` and `eid` are unique identifiers for splice variants and splicing events respectively. They are analogous to exon bin and gene identi…
Comment: Help with error using camera() in limma by Chris • 0
Thanks James! I fixed the error. I try gene symbol instead of entrez and it worked.
Comment: limma for gene expression analysis with big and unbalanced sample size by XW • 0
Could you explain more about the comment "there are no problems with using limma for unbalanced data sets" ? thanks.
Votes
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
C: Extremely big genes in annotation TxDb packages
Make custom Txdb class objects from Txdb
Awards • All
Popular Question to Ian D. ▴ 70
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Scholar to James W. MacDonald 65k
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