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bug
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0
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254
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graper 1.22 Build is Broken
bug
graper
offtopic
updated 5 weeks ago by
shepherl
4.1k • written 5 weeks ago by
Bjarne
• 0
1
vote
5
replies
983
views
Manual creation of qPCRset does not work
bug
nondetects
HTqPCR
updated 17 months ago by
Nat.Nataren
• 0 • written 18 months ago by
Ed Siefker
▴ 230
0
votes
1
reply
1.2k
views
Bug: MOFA2 sets an environment variable that breaks knit in RStudio
RStudio
MOFA2
bug
knitr
updated 2.5 years ago by
James W. MacDonald
68k • written 2.5 years ago by
Kevin Coombes
▴ 430
0
votes
0
replies
743
views
Hopach: distancematrix and distancevector do not return identical results
documentation
bug
hopach
euclidean
distance
3.1 years ago
txema.heredia
• 0
4
votes
2
replies
1.1k
views
TENxPBMCData error loading PBMC4k data
bug
TENxPBMCData
4.4 years ago
zhe
▴ 20
3
votes
4
replies
2.1k
views
Different geneset same p-values in topGO
topgo
bug
8.2 years ago • updated 4.6 years ago
Lluís Revilla Sancho
▴ 760
0
votes
1
reply
1.5k
views
pheatmap needs to be manually added to plot heatmaps
singler
bug
5.0 years ago
muad.abdelhay
▴ 10
0
votes
0
replies
1.1k
views
[DSS] callDMR - dis.merge option does not seem to be working
DSS
bug
troubleshooting
callDMR
5.4 years ago
matthew.kearney
• 0
0
votes
4
replies
1.7k
views
Inconsistent geo_char for rse_tx
bug
recount
6.3 years ago • updated 5.5 years ago
Jacques.van-Helden
• 0
0
votes
3
replies
1.2k
views
collapseReplicates changes order of factors
deseq2
bug
6.4 years ago
António Miguel de Jesus Domingues
▴ 510
0
votes
5
replies
1.2k
views
GenomicFeatures supportedUCSCFeatureDbTracks never returns and has to be terminated with C-c
genomicfeatures
bug
updated 6.4 years ago by
James W. MacDonald
68k • written 6.4 years ago by
Malcolm Cook
★ 1.6k
0
votes
1
reply
1.2k
views
A recent update to readr cause issues loading data with GEOquery 2.50.0
version compatibility
bug
updated 6.4 years ago by
Steve Lianoglou
★ 13k • written 6.4 years ago by
stun24
• 0
0
votes
7
replies
2.7k
views
DEXSeqHTML getListElement GRanges error
dexseq
software error
bug
updated 6.4 years ago by
nitesh.turaga
▴ 140 • written 6.4 years ago by
Lance Parsons
• 0
0
votes
0
replies
904
views
bug found in restfulSE::BQ3_Array/repaired
bug
6.7 years ago
Vincent J. Carey, Jr.
6.7k
0
votes
1
reply
1.4k
views
DelayedArray install fails to UNC path
delayedarray
bug
installation
updated 6.7 years ago by
Martin Morgan
25k • written 6.8 years ago by
simon.andrews
• 0
0
votes
0
replies
885
views
shinyTANDEM web GUI doesn't render properly
shinytandem
bug
6.8 years ago
Ed Siefker
▴ 230
1
vote
1
reply
1.3k
views
rTandem compilation failed
rtandem
bug
compilation error
6.9 years ago
Ed Siefker
▴ 230
1
vote
3
replies
1.2k
views
SeqPattern plotPatternOccurrenceAverage problem
SeqPattern
bug
6.9 years ago
elisheva.h02
• 0
0
votes
13
replies
2.4k
views
R 3.5.0/Bioconductor version 3.6: OS-dependent behavior divergence for list concatenation of SummarizedExperiment
summarizedexperiment
bug
3.5.0
updated 6.9 years ago by
James W. MacDonald
68k • written 6.9 years ago by
balin
• 0
1
vote
1
reply
1.4k
views
Bug in Biostrings DNAStringSet(), segfault
bug
biostrings
updated 7.1 years ago by
Martin Morgan
25k • written 7.1 years ago by
ebiederstedt
▴ 10
3
votes
2
replies
2.3k
views
coverage() output SimpleRleList cannot be converted to GRanges
bug
genomicranges
granges
rlelist
coverage
updated 7.2 years ago by
Hervé Pagès
16k • written 7.2 years ago by
xiaotong.yao23
▴ 10
0
votes
4
replies
1.7k
views
problem with get_link function
STRINGdb
get_link
bug
7.3 years ago
cristinapasi
• 0
5
votes
16
replies
3.0k
views
GSVA package scores are opposite on mac and windows
GSVA
bug
gsva
bugs
updated 7.5 years ago by
Robert Castelo
★ 3.4k • written 7.5 years ago by
JasonL_Weirather
▴ 10
0
votes
1
reply
1.1k
views
GenomicRanges: Possible Bug
genomicranges
bug
updated 7.5 years ago by
James W. MacDonald
68k • written 7.5 years ago by
r.lowe
• 0
0
votes
0
replies
1.2k
views
[RCircos] Examples flagged as not run
rcircos
bug
7.6 years ago
Marcel Ramos
700
2
votes
1
reply
1.7k
views
Possible bug: outdated result from listDatabases()
KEGGREST
bug
updated 7.7 years ago by
daniel.vantwisk
▴ 50 • written 7.7 years ago by
olj23
• 0
2
votes
1
reply
2.2k
views
Cummerbund error column name mismatch
cummerbund
bug
error
7.7 years ago
tannerndrsn4
▴ 20
0
votes
0
replies
1.1k
views
sangerseqR::read.abif reads float data incorrectly on little-endian systems
sangerseqR
bug
7.9 years ago
brendan.furneaux
▴ 10
0
votes
4
replies
2.0k
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 7.9 years ago by
Mark Dunning
★ 1.1k • written 8.0 years ago by
S. K.
• 0
0
votes
0
replies
1.5k
views
OmicCircos: included UCSC.hg19.chr dataframe is actually hg18 cytobands
omiccircos
bug
hg19
hg18
data
7.9 years ago
matthew.bashton
• 0
1
vote
2
replies
1.5k
views
BiocCheck path escape issue
bioccheck
bug
8.0 years ago • updated 7.9 years ago
Michael Steinbaugh
▴ 90
3
votes
2
replies
1.7k
views
Crash GSVA 1.24.0 with bootstrapping
GSVA
bug
updated 7.9 years ago by
Robert Castelo
★ 3.4k • written 7.9 years ago by
Sander Tan
▴ 20
0
votes
0
replies
1.2k
views
beadarray: Make grep in readSamplesheet case insensitive
beadarray
bug
8.0 years ago
S. K.
• 0
3
votes
4
replies
1.4k
views
Does Rsamtools support tag names with number characters? i.e ."B1"
rsamtools
bug
updated 8.0 years ago by
Martin Morgan
25k • written 8.0 years ago by
joelrrv
• 0
9
votes
2
replies
10k
views
Using RSEM with tximport and DESeq2
deseq2
tximport
software error
bug
updated 3.6 years ago by
Michael Love
43k • written 8.1 years ago by
falkohofmann
▴ 10
0
votes
2
replies
2.2k
views
Problem with GeneSetCollection after updating R devel packages.
bug
gseabase
example
8.2 years ago
jcrodriguez
▴ 20
3
votes
2
replies
3.0k
views
Rqc - envir must be either NULL, a list, or an environment.
software error
bug
library
updated 8.2 years ago by
Welliton de Souza
▴ 70 • written 8.2 years ago by
guus.steeg
▴ 10
1
vote
2
replies
1.7k
views
Error in Biostrings with Fastafiles using the carriage return <cr>
biostrings
software error
bug
updated 8.2 years ago by
Hervé Pagès
16k • written 8.2 years ago by
zach.charlop.powers
• 0
2
votes
3
replies
1.6k
views
Probable bug in GSEABase package.
software error
bug
gseabase
8.2 years ago
jcrodriguez
▴ 20
1
vote
2
replies
2.3k
views
Error when using multiple heatmaps in ComplexHeatmaps
ComplexHeatmap
bug
8.2 years ago
brt381
• 0
3
votes
5
replies
2.1k
views
Selecting few ids from reactome.db
annotationdbi
reactome.db
bug
updated 8.3 years ago by
Martin Morgan
25k • written 8.3 years ago by
Lluís Revilla Sancho
▴ 760
0
votes
2
replies
1.7k
views
Problem with VariantAnnotation and VCF "R" genotype fields when expanding CollapsedVCF
VariantAnnotation
bug
updated 8.4 years ago by
Valerie Obenchain
★ 6.8k • written 8.4 years ago by
Sean Davis
21k
0
votes
0
replies
1.1k
views
Error in pr_DB$get_entry(method) : could not find function "f"
destiny
software error
bug
8.4 years ago
mrodriguezorejuela
• 0
2
votes
4
replies
2.4k
views
topGO crashes with ' argument "annotationFun" is missing, with no default'
bug
topGO
updated 8.4 years ago by
James W. MacDonald
68k • written 8.4 years ago by
Philip Lijnzaad
▴ 160
0
votes
2
replies
1.5k
views
class "AsIs" is not valid for @'dataset' in an object of class "Mart"; is(value, "character")
bug
biomart
8.4 years ago
Philip Lijnzaad
▴ 160
0
votes
5
replies
1.7k
views
GRanges nearest fails for non-overlapping regions
bug
genomicranges
granges
nearest
8.4 years ago
dondelelcaro
▴ 10
3
votes
3
replies
3.1k
views
Transcripts in TxDb.Hsapiens.UCSC.hg38.knownGene but not in ucsc genome brower
annotation
txdb.hsapiens.ucsc.hg38.knowngene
bug
8.5 years ago
shilin.zhao
▴ 40
1
vote
1
reply
2.1k
views
GSEABase getGmt() fails when more than 1 line contains duplicates
gseabase
bug
updated 8.6 years ago by
Martin Morgan
25k • written 8.6 years ago by
dondelelcaro
▴ 10
0
votes
2
replies
5.8k
views
Possible bug in Biostrings::readAAStringSet
bug
biostrings
readAAStringSet
updated 8.6 years ago by
Guangchuang Yu
★ 1.2k • written 8.6 years ago by
asis.hallab
• 0
0
votes
0
replies
1.0k
views
[bug] BayesPeak cannot deal with RangedData input
BayesPeak
bug
8.7 years ago
balwierz
▴ 40
50 results • Page
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Answer: how to use `arrayWeightsQuick()`?
by
Gordon Smyth
52k
Yes, that is the correct way to use `arrayWeightsQuick`. Thanks for pointing out that there is still a reference to `arrayWeightsSimple` i…
Answer: fast apply on RleList
by
story.benjamin
▴ 20
solved with viewApply (code is simplified below) + map reduce on chrs test.split <- split(test.gr,seqnames(test.gr)) final.st…
Comment: fast apply on RleList
by
story.benjamin
▴ 20
Hi James, thanks for the reply. I ultimately figured it out ... viewApply showed a massive speed increase for me (see other answer) - I was…
Answer: fast apply on RleList
by
James W. MacDonald
68k
There is already a 'mean' function that will dispatch on an `RleList` that you can use. I don't have a long `RleList` in hand to test it on…
Answer: Custom CDF creation for HTA 2.0 array using GTF annotation
by
James W. MacDonald
68k
It doesn't appear that Manhong Dai is working at UM any longer, and the webpage appears to have fallen into disrepair (for example, the lin…
Votes
annotation EpicV2
Answer: fast apply on RleList
Answer: BiocParallel_1.40.1.tar.gz not available
Modelling gene program dynamics across time with {lemur}
A: DESeq2 one group vs multiple groups comparison in presence of batch effect
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