Showing : bug • reset
0
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2
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439
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graper 1.22 Build is Broken
bug graper offtopic
updated 6 months ago by 4.2k • written 6 months ago by • 0
1
vote
5
replies
1.1k
views
Manual creation of qPCRset does not work
bug nondetects HTqPCR
updated 22 months ago by • 0 • written 24 months ago by ▴ 230
0
votes
1
reply
1.4k
views
Bug: MOFA2 sets an environment variable that breaks knit in RStudio
RStudio MOFA2 bug knitr
updated 2.9 years ago by 68k • written 2.9 years ago by ▴ 430
0
votes
0
replies
815
views
Hopach: distancematrix and distancevector do not return identical results
documentation bug hopach euclidean distance
3.6 years ago txema.heredia • 0
4
votes
2
replies
1.2k
views
TENxPBMCData error loading PBMC4k data
bug TENxPBMCData
4.9 years ago zhe ▴ 20
3
votes
4
replies
2.3k
views
Different geneset same p-values in topGO
topgo bug
8.7 years ago • updated 5.0 years ago Lluís Revilla Sancho ▴ 760
0
votes
1
reply
1.7k
views
pheatmap needs to be manually added to plot heatmaps
singler bug
5.4 years ago muad.abdelhay ▴ 10
0
votes
0
replies
1.2k
views
[DSS] callDMR - dis.merge option does not seem to be working
DSS bug troubleshooting callDMR
5.8 years ago matthew.kearney • 0
0
votes
4
replies
1.8k
views
Inconsistent geo_char for rse_tx
bug recount
6.7 years ago • updated 5.9 years ago Jacques.van-Helden • 0
0
votes
3
replies
1.3k
views
collapseReplicates changes order of factors
deseq2 bug
6.8 years ago António Miguel de Jesus Domingues ▴ 510
0
votes
5
replies
1.3k
views
GenomicFeatures supportedUCSCFeatureDbTracks never returns and has to be terminated with C-c
genomicfeatures bug
updated 6.8 years ago by 68k • written 6.8 years ago by ★ 1.6k
0
votes
1
reply
1.3k
views
A recent update to readr cause issues loading data with GEOquery 2.50.0
version compatibility bug
updated 6.8 years ago by ★ 13k • written 6.8 years ago by • 0
0
votes
7
replies
2.8k
views
DEXSeqHTML getListElement GRanges error
dexseq software error bug
updated 6.8 years ago by ▴ 140 • written 6.8 years ago by • 0
0
votes
0
replies
957
views
bug found in restfulSE::BQ3_Array/repaired
bug
7.1 years ago Vincent J. Carey, Jr. 6.7k
0
votes
1
reply
1.5k
views
DelayedArray install fails to UNC path
delayedarray bug installation
updated 7.1 years ago by 25k • written 7.2 years ago by • 0
0
votes
0
replies
932
views
shinyTANDEM web GUI doesn't render properly
shinytandem bug
7.3 years ago Ed Siefker ▴ 230
1
vote
1
reply
1.4k
views
rTandem compilation failed
rtandem bug compilation error
7.3 years ago Ed Siefker ▴ 230
1
vote
3
replies
1.3k
views
SeqPattern plotPatternOccurrenceAverage problem
SeqPattern bug
7.3 years ago elisheva.h02 • 0
0
votes
13
replies
2.6k
views
R 3.5.0/Bioconductor version 3.6: OS-dependent behavior divergence for list concatenation of SummarizedExperiment
summarizedexperiment bug 3.5.0
updated 7.3 years ago by 68k • written 7.3 years ago by • 0
1
vote
1
reply
1.4k
views
Bug in Biostrings DNAStringSet(), segfault
bug biostrings
updated 7.5 years ago by 25k • written 7.5 years ago by ▴ 10
3
votes
2
replies
2.4k
views
coverage() output SimpleRleList cannot be converted to GRanges
bug genomicranges granges rlelist coverage
updated 7.6 years ago by 16k • written 7.6 years ago by ▴ 10
0
votes
4
replies
1.8k
views
problem with get_link function
STRINGdb get_link bug
7.7 years ago cristinapasi • 0
5
votes
16
replies
3.3k
views
GSVA package scores are opposite on mac and windows
GSVA bug gsva bugs
updated 7.9 years ago by ★ 3.4k • written 7.9 years ago by ▴ 10
0
votes
1
reply
1.2k
views
GenomicRanges: Possible Bug
genomicranges bug
updated 7.9 years ago by 68k • written 7.9 years ago by • 0
0
votes
0
replies
1.2k
views
[RCircos] Examples flagged as not run
rcircos bug
8.0 years ago Marcel Ramos 700
2
votes
1
reply
1.8k
views
Possible bug: outdated result from listDatabases()
KEGGREST bug
updated 8.1 years ago by ▴ 50 • written 8.1 years ago by • 0
2
votes
1
reply
2.3k
views
Cummerbund error column name mismatch
cummerbund bug error
8.2 years ago tannerndrsn4 ▴ 20
0
votes
0
replies
1.2k
views
sangerseqR::read.abif reads float data incorrectly on little-endian systems
sangerseqR bug
8.3 years ago brendan.furneaux ▴ 10
0
votes
4
replies
2.2k
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 8.3 years ago by ★ 1.1k • written 8.4 years ago by • 0
0
votes
0
replies
1.6k
views
OmicCircos: included UCSC.hg19.chr dataframe is actually hg18 cytobands
omiccircos bug hg19 hg18 data
8.4 years ago matthew.bashton • 0
1
vote
2
replies
1.6k
views
BiocCheck path escape issue
bioccheck bug
8.4 years ago Michael Steinbaugh ▴ 90
3
votes
2
replies
1.8k
views
Crash GSVA 1.24.0 with bootstrapping
GSVA bug
updated 8.4 years ago by ★ 3.4k • written 8.4 years ago by ▴ 20
0
votes
0
replies
1.3k
views
beadarray: Make grep in readSamplesheet case insensitive
beadarray bug
8.4 years ago S. K. • 0
3
votes
4
replies
1.6k
views
Does Rsamtools support tag names with number characters? i.e ."B1"
rsamtools bug
updated 8.4 years ago by 25k • written 8.4 years ago by • 0
9
votes
2
replies
11k
views
Using RSEM with tximport and DESeq2
deseq2 tximport software error bug
updated 4.0 years ago by 43k • written 8.6 years ago by ▴ 10
0
votes
2
replies
2.3k
views
Problem with GeneSetCollection after updating R devel packages.
bug gseabase example
8.6 years ago jcrodriguez ▴ 20
3
votes
2
replies
3.1k
views
Rqc - envir must be either NULL, a list, or an environment.
software error bug library
updated 8.6 years ago by ▴ 70 • written 8.6 years ago by ▴ 10
1
vote
2
replies
2.0k
views
Error in Biostrings with Fastafiles using the carriage return <cr>
biostrings software error bug
updated 8.6 years ago by 16k • written 8.6 years ago by • 0
2
votes
3
replies
1.7k
views
Probable bug in GSEABase package.
software error bug gseabase
8.6 years ago jcrodriguez ▴ 20
1
vote
2
replies
2.4k
views
Error when using multiple heatmaps in ComplexHeatmaps
ComplexHeatmap bug
8.7 years ago • updated 8.6 years ago brt381 • 0
3
votes
5
replies
2.2k
views
Selecting few ids from reactome.db
annotationdbi reactome.db bug
updated 8.7 years ago by 25k • written 8.7 years ago by ▴ 760
0
votes
2
replies
1.8k
views
Problem with VariantAnnotation and VCF "R" genotype fields when expanding CollapsedVCF
VariantAnnotation bug
updated 8.8 years ago by ★ 6.8k • written 8.8 years ago by 21k
0
votes
0
replies
1.2k
views
Error in pr_DB$get_entry(method) : could not find function "f"
destiny software error bug
8.8 years ago mrodriguezorejuela • 0
2
votes
4
replies
2.5k
views
topGO crashes with ' argument "annotationFun" is missing, with no default'
bug topGO
updated 8.8 years ago by 68k • written 8.8 years ago by ▴ 160
0
votes
2
replies
1.6k
views
class "AsIs" is not valid for @'dataset' in an object of class "Mart"; is(value, "character")
bug biomart
8.8 years ago Philip Lijnzaad ▴ 160
0
votes
5
replies
1.8k
views
GRanges nearest fails for non-overlapping regions
bug genomicranges granges nearest
8.9 years ago dondelelcaro ▴ 10
3
votes
3
replies
3.2k
views
Transcripts in TxDb.Hsapiens.UCSC.hg38.knownGene but not in ucsc genome brower
annotation txdb.hsapiens.ucsc.hg38.knowngene bug
8.9 years ago shilin.zhao ▴ 40
1
vote
1
reply
2.2k
views
GSEABase getGmt() fails when more than 1 line contains duplicates
gseabase bug
updated 9.0 years ago by 25k • written 9.0 years ago by ▴ 10
0
votes
2
replies
6.0k
views
Possible bug in Biostrings::readAAStringSet
bug biostrings readAAStringSet
updated 9.0 years ago by ★ 1.2k • written 9.0 years ago by • 0
0
votes
0
replies
1.1k
views
[bug] BayesPeak cannot deal with RangedData input
BayesPeak bug
9.1 years ago balwierz ▴ 40
74 results • Page 1 of 2
Recent ...
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Answer: readBam vs read_bam_insert_metrics by James W. MacDonald 68k
Depends on what you mean by input. If you mean to ask if you use `readBam` to generate something to use as an argument to `read_bam_insert_…
Answer: How to construct a BSgenome object from a custom genome assembly using BSgenomeF by James W. MacDonald 68k
There is an example in the help page for `forgeBSgenomePkgFromTwobitFile`. Have you tried emulating that?
Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by Gordon Smyth 53k
What you describe sounds a good approach to me. I would also use sample weights (`sample.weights=TRUE` when running `voomLmFit`) and robust…
Comment: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg? by Michael Love 43k
I moved your post from an "answer" to a "comment". I don't know about `offst()` function, what is the scale or direction, or whether you a…
Comment: Average biological replicates in RNA-seq by boczniak767 ▴ 740
@atpoint Should I first standardise data and then average replicates?
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Answer: Limpa Pipeline Order
A: How barcode-plot enrichment is calculated?
A: How barcode-plot enrichment is calculated?
Answer: ROAST compare results with complex design
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
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