1
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9
replies
3.0k
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Dotplots for differential gene expression data ?
clusterprofiler
3.9 years ago sunnykevin97 • 0
3
votes
9
replies
3.8k
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champ.runCombat is failing: "invalid 'row.names' length"
champ
5.8 years ago Gurkenkönig ▴ 10
7
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9
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1.7k
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codelink package is not installing
codelink r
9.1 years ago Agaz Hussain Wani ▴ 260
0
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9
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3.0k
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clusterProfiler-GO enrichment Error
Aaltissimus
updated 2.1 years ago by ★ 4.0k • written 2.2 years ago by • 0
2
votes
9
replies
7.5k
views
Multiple alignments (multi-mapped reads) and DESeq/edgeR pipeline
deseq deseq2 edger tophat bowtie
8.9 years ago ysdel ▴ 40
1
vote
9
replies
2.4k
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Handling DNA sequence loaded from a file
r biostrings DNAsequence
updated 23 months ago by 65k • written 8.1 years ago by ▴ 260
0
votes
9
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2.4k
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Question about Agilent microarray data measurement
Agilent limma scan.upc microarray
7.5 years ago Maximilian ▴ 10
1
vote
9
replies
2.5k
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errors in namespaceExports during biocLite installs
biocinstaller installation
9.1 years ago shabbychef • 0
2
votes
9
replies
2.1k
views
STRINGdb images very low quality?
STRINGdb
updated 2.4 years ago by ▴ 80 • written 2.5 years ago by ▴ 30
0
votes
9
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1.9k
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RforProteomics workflow troubleshooting
proteomics
7.9 years ago yockpingchow • 0
0
votes
9
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1.7k
views
Unable to find solution: low coverage
PureCN fatal error no solution
6.0 years ago twtoal ▴ 10
3
votes
9
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2.3k
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problem for finding soft thresholding in WGCNA algorithm
wgcna abline function Scale independence diagram
5.6 years ago modarzi ▴ 10
0
votes
9
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2.2k
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problem using >3 clusters with Quasr
quasr parallel
updated 8.3 years ago by 25k • written 8.3 years ago by ▴ 90
0
votes
8
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2.1k
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DEXSeqHTML Output Trouble
dexseq dexseqhtml
8.2 years ago skasowitz • 0
0
votes
8
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3.4k
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featureCounts Returns 0.0% successfully assigned fragments
rsubread featurecounts
5.9 years ago connor.geraghty • 0
0
votes
8
replies
1.2k
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Question on bgzf_read error
diffbind
4.5 years ago Kath • 0
2
votes
8
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2.4k
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Reading HDF5 Files In The Cloud
Rhdf5lib rhdf5
3.2 years ago • updated 9 months ago Thomas Sandmann ▴ 90
0
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8
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1.1k
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Question about Diffbind counts
DiffBind
16 months ago slrpatty • 0
0
votes
8
replies
1.6k
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DropletUtils::read10xCounts error
read10xCounts DropletUtils
16 months ago fdumetz • 0
1
vote
8
replies
3.2k
views
Help with this in Rstudio - ERROR: the BAM input file, 'sample.bam', doesn't have a valid EOF block.
Rsubread
2.6 years ago • updated 2.5 years ago v.merino.nicolas ▴ 10
3
votes
8
replies
2.6k
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AnnotationForge::makeOrgPackage GO Ids mistake
AnnotationHubData AnnotationForge
2.1 years ago Saber_J ▴ 10
0
votes
8
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2.6k
views
Usecase_AnnotationHub_GRanges.Rmd, genes = qhs[[1]] can't download UCSC 'refGene'. - Window 7, R 3.2.1, RStudio 0.99.484
annotationhub bioconductor for genomic data science
8.7 years ago J.C. SUN • 0
2
votes
8
replies
4.9k
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GDCquery_Maf error
TCGAbiolinks GDCquery_Maf
updated 22 months ago by • 0 • written 2.1 years ago by • 0
1
vote
8
replies
2.3k
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ReactomePA gsePathway - a couple of questions regarding the input and output
reactomepa
7.1 years ago juls • 0
2
votes
8
replies
1.7k
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GENESIS: PCAIR: Error in acc(object, NL[cnode]) : unmatched node provided
genesis pcair
6.0 years ago GENOMIC_region • 0
7
votes
8
replies
3.8k
views
R failing to load genome files from EnsDb.Hsapiens.v86
tximport ensembldb EnsDB.hsapiens.v86
updated 5.4 years ago by 0 • written 5.5 years ago by ▴ 20
0
votes
8
replies
1.5k
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Question: GENESIS: assocTestSingle() is not giving any output; guessing that it is arising from GenotypeBlockIterator()
Genesis
4.3 years ago alipka ▴ 10
3
votes
8
replies
26k
views
"Error in readRDS(file) : unknown input format" appearing every time starting Rstudio after BiocUpgrade
BiocUpgrade Rstudio Bioconductor R3.2.2
8.5 years ago svlachavas ▴ 830
2
votes
8
replies
943
views
Reason for NA in table after beta regression?
biseq beta regression
3.9 years ago akhaira • 0
1
vote
8
replies
1.2k
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Can't install 'pqsfinder'
pqsfinder
5.2 years ago aabarnes2 • 0
0
votes
8
replies
1.9k
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Error, could not find function"file.edit", the install problem
illuminaHumanv2.db
4.9 years ago JXG1819 • 0
2
votes
8
replies
2.5k
views
biomaRt : No lock file for BiocFileCache
BiocFileCache biomaRt
updated 2.1 years ago by 25k • written 2.1 years ago by ▴ 60
3
votes
8
replies
1.3k
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please someone help me to run this code
software error R
8.3 years ago Angel ▴ 40
0
votes
8
replies
1.9k
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error in RnBeads installation
Epigenetics RnBeads R
2.2 years ago Jitendra ▴ 10
10
votes
8
replies
3.0k
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Best alternative annotation package to BiomaRt
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4.9 years ago m93 ▴ 10
2
votes
8
replies
1.7k
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lpsymphony install on Ubuntu
lpsymphony
7.2 years ago Michael Love 42k
2
votes
8
replies
2.0k
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Error: se does not inherit from class SummarizedExperiment
DEP SummarizedExperiment
4.8 years ago Wuschel ▴ 10
0
votes
8
replies
383
views
DESeq2 output used for PCA plot on R studio
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updated 22 days ago by ★ 1.4k • written 24 days ago by • 0
0
votes
8
replies
1.2k
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Failed to read SDRF
software error arrayexpressHTS
4.2 years ago Ed Siefker ▴ 230
0
votes
7
replies
2.3k
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makeTxDbFromGFF yields an empty TxDb
annotation maketxdbfromgff genomicfeatures
8.6 years ago José Luis Lavín ▴ 10
0
votes
7
replies
1.9k
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GO.db installation problems with BiocManager in R
R Bioconductor
5.2 years ago d.m.j.thorburn • 0
1
vote
7
replies
1.8k
views
Error using champ.import
ChAMP EPICv2
updated 4 weeks ago by • 0 • written 10 months ago by • 0
0
votes
7
replies
1.6k
views
RankProd crashing - stability issues?
rankprod crash
6.9 years ago bhgyu ▴ 30
8
votes
7
replies
1.2k
views
Why is DMRcate not available for Bioconductor version 3.18?
DMRcate
written 5 months ago by ▴ 30
1
vote
7
replies
1.5k
views
query regarding error in installation of "goseq" R bioconductor package
R Bioconductor Install
updated 17 months ago by 3.9k • written 17 months ago by • 0
0
votes
7
replies
1.9k
views
Problem with fgsea
fgsea
updated 2.1 years ago by ▴ 260 • written 2.1 years ago by • 0
0
votes
7
replies
1.8k
views
Error in loading rsbml
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7.9 years ago enrico.moiso • 0
2
votes
7
replies
2.7k
views
DESeq(): Forking of R Process even though parallel=FALSE
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updated 7.7 years ago by 42k • written 7.7 years ago by • 0
0
votes
7
replies
3.2k
views
Mouse GSEA Analysis
clusterProfiler
updated 17 months ago by 42k • written 18 months ago by • 0
1
vote
7
replies
2.2k
views
Error with slingshot slingPseudotime and slingCurveWeights after using fitGAM from tradeSeq
tradeSeq slingshot
22 months ago • updated 21 months ago manduchi ▴ 10
1,000 results • Page 2 of 20
Recent ...
Replies
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by JKim • 0
The 1st model has an interaction term, but the 2nd model doesn't have the interaction term. That makes the difference.
Comment: Ensembl plants at annotationHub? by Daniele • 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network() by damian.szk ▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
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Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
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