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0
replies
3
views
fgsea usage question - what gene set to use?
fgsea
35 minutes ago
alexandr.gopanenko
• 20
0
votes
0
replies
3
views
Hello how to use ChIPpeakAnno for latest version of ensemble genome aligned data
ChIPpeakAnno
40 minutes ago
Lucky
• 0
0
votes
0
replies
9
views
Error in UseMethod("filter_") for RIPSeeker package
biomaRt
Bioconductor-RIPSeeker
5 hours ago
Yongqing
• 0
0
votes
0
replies
10
views
How to better run DEXSeq with a very large number of samples?
DEXSeq
8 hours ago
Angel
• 0
0
votes
0
replies
10
views
DESeq2 design formula and batch correction
DESeq2
9 hours ago
lransom
• 0
1
vote
1
reply
33
views
read nanopore Fastq file
NanoporeRNASeq
RNASeq
14 hours ago
sinanoori88
• 0
• updated 12 hours ago
James W. MacDonald
56k
2
votes
3
replies
73
views
error when reading fastq file
FastqCleaner
fastq
ShortRead
1 day ago
sinanoori88
• 0
• updated 14 hours ago
James W. MacDonald
56k
1
vote
1
reply
50
views
News:
SBGNview: Data Analysis, Integration and Visualization on 5000+ Pathways/3000+ Species
SBGNview
pathways
SBGNview.data
pathview
visualization
2 days ago • updated 16 hours ago
Luo Weijun
♦ 1.5k
0
votes
1
reply
22
views
topGo GenTable returns result column as character
GenTable
topGO
19 hours ago
dario.beraldi
• 0
• updated 19 hours ago
James W. MacDonald
56k
0
votes
0
replies
12
views
stageR error - Some genes have only one transcript; this is incompatible with DTU correction. Remove these transcripts.
stageR
DRIMSeq
19 hours ago
sbcn
• 60
0
votes
4
replies
81
views
ribosomeProfilingQC - countReads function - is it possible to consider library type - non-stranded, forward-stranded or rev-stransded?
ribosomeProfilingQC
countReads
5 days ago • updated 1 hour ago
alexandr.gopanenko
• 20
0
votes
1
reply
44
views
iupac2meme function missing in universalmotif package
universalmotif
8 days ago
lessismore
• 0
• updated 21 hours ago
b2tremblay
• 0
1
vote
1
reply
54
views
An attempt to better understand DESeq2 dispersion estimation
DESeq2
1 day ago
Sam
• 10
• updated 22 hours ago
Michael Love
32k
0
votes
1
reply
48
views
Biological replicates in DESeq2
DESeq2
Bioconductor
RNASeqR
1 day ago
Blanca
• 0
• updated 23 hours ago
ATpoint
• 470
3
votes
1
reply
31
views
How to find rsID with biomaRt in R
biomaRt
1 day ago
Federica
• 10
• updated 23 hours ago
Mike Smith
♦ 4.9k
1
vote
4
replies
64
views
Issues with setting up `rJava` in Github actions for package checking
github-actions
biocthis
rJava
1 day ago
aravind-j
• 20
2
votes
2
replies
66
views
Error when loading annotation featureCounts
featureCounts
Rsubread
subread
CellBiology
1 day ago
Jason
• 0
• updated 1 day ago
Yang Liao
• 220
0
votes
17
replies
160
views
problem installing ENmix package
ENmix
Bioconductor
rtracklayer
2 days ago
lea
• 0
• updated 1 day ago
James W. MacDonald
56k
0
votes
1
reply
57
views
tximport rowsum error
tximport
4 days ago • updated 1 day ago
Ezgi
• 30
0
votes
0
replies
23
views
News:
Submission Deadline for Bioc2021 Next Week!
Conference
Bioc2021
1 day ago
shepherl
2.5k
0
votes
0
replies
42
views
Job:
Bioinformatician in Core Facility (100%)
JobPosting
Job
Switzerland
Basel
1 day ago
Robert Ivanek
• 660
0
votes
0
replies
26
views
Job:
Bioinformatician at MiroBio, Oxford, UK
Transcriptomics
Bioconductor
Statistics
Job
Biocon
2 days ago
m.jackson
• 0
0
votes
0
replies
26
views
metage problem with DESeq
DESeq
metagene2
metagene
2 days ago
GM
• 10
1
vote
3
replies
107
views
Batch correction and DESeq2
DESeq2
3 days ago • updated 2 days ago
Alessia
• 0
0
votes
0
replies
49
views
VCF File too large for tabix. Best option to make it usable with R?
samtools
tabix
VariantAnnotation
VCFArray
2 days ago
naive
• 0
1
vote
2
replies
55
views
Diffbind error while running example data
DiffBind
2 days ago • updated 1 day ago
Lucky
• 0
1
vote
3
replies
82
views
Best way to handle tags of bam files
GenomicAlignments
bam
Rsamtools
4 days ago • updated 2 days ago
changxu.fan
• 0
0
votes
0
replies
27
views
How to get illumina CpG IDs by gene name?
MethylationArrayData
RnBeads
2 days ago
D
• 0
0
votes
1
reply
53
views
Can you colour dendrogram branch clusters in pheatmap?
R
heatmaps
pheatmap
4 days ago
trichorico
• 10
• updated 2 days ago
Kevin Blighe
2.5k
2
votes
1
reply
59
views
Splitting multiple groups - three different ages
DESeq2
3 days ago
jd348
• 0
• updated 2 days ago
Michael Love
32k
0
votes
3
replies
84
views
Same methylation probe ID with different locus annotations in Illumina 27k and 450k plotforms
IlluminaHumanMethylation27kanno.ilmn12.hg19
3 days ago
yuabrahamliu
• 0
• updated 1 hour ago
Kevin Blighe
2.5k
0
votes
1
reply
42
views
DESeq2, tximport normalization, normalization factors, size factors
tximport
DESeq2
normalizationfactors
sizefactors
3 days ago
svenbioinf
• 0
• updated 2 days ago
Michael Love
32k
2
votes
4
replies
76
views
Removing rows (countData) from a DESeq Object
DESeq2
3 days ago
Bine
• 0
3
votes
1
reply
57
views
Using group instead of interaction term on a custom edited matrix
DESeq2
3 days ago
jd348
• 0
• updated 3 days ago
Michael Love
32k
1
vote
2
replies
86
views
DMRcate extractRanges error
DMRcate
4 days ago • updated 1 day ago
macsue.jacques
• 10
0
votes
1
reply
58
views
Deseq2 Paired Samples Design
DESeq2
4 days ago
Rita
• 0
• updated 4 days ago
Michael Love
32k
2
votes
4
replies
111
views
Using edgeR and a spike-in to calculate absolute abundance
edgeR
SpikeIn
RNASeq
5 days ago • updated 18 hours ago
robert.chen
• 0
0
votes
1
reply
54
views
Produce quantile normalized expression values for use with BatchQC
BatchQC
5 days ago
Josh
• 0
• updated 4 days ago
Malcolm Cook
♦ 1.5k
1
vote
1
reply
55
views
PCA rand heatmap of raw data
DESeq2
DiffSeq
PrincipalComponent
rlog
heatmaps
4 days ago
Fischer-philipp
• 30
• updated 4 days ago
Michael Love
32k
2
votes
3
replies
71
views
Single sided P-value for DESeq2 Likelihood Ratio Test
DESeq2
DESe
4 days ago
glennli
• 0
• updated 4 days ago
Michael Love
32k
1
vote
1
reply
61
views
DiffBind fragmentSize meaning
DiffBind
12 days ago
Jürgen
• 0
• updated 4 days ago
Rory Stark
♦ 3.6k
2
votes
4
replies
99
views
DiffBind analysis for ATAC-Seq error Error processing one or more read files
ATACSeq
DiffBind
9 days ago
Asma
• 0
• updated 4 days ago
Rory Stark
♦ 3.6k
0
votes
1
reply
58
views
ERROR: cannot finish the BAM file. Please check the disk space in the output directory.
Rsubread
4 days ago
Mehrad
• 0
• updated 4 days ago
Yang Liao
• 220
0
votes
3
replies
106
views
How to properly average normalized counts of biological replicates
DESeq2
Normalization
RNASeqR
6 days ago
Marina
• 0
• updated 3 days ago
Michael Love
32k
4
votes
5
replies
116
views
DEseq2 results
heatmaps
DEGs
PCA
4 days ago
MOHAMMAD
• 0
• updated 3 days ago
Kevin Blighe
2.5k
0
votes
1
reply
54
views
How to plot the RMA log2 normalised data from Affymetrix
log2
RMA
Affymetrix
affy
Normalization
6 days ago
Lara
• 0
• updated 5 days ago
Kevin Blighe
2.5k
0
votes
2
replies
69
views
Error: Aesthetics must be either length 1 or the same as the data (1): x and xend
fgsea
6 days ago
yueli7
• 10
• updated 5 days ago
Kevin Blighe
2.5k
0
votes
2
replies
58
views
Error in library(oligo) : package or namespace load failed for ‘oligoClasses’
R
oligoClasses
Oligoclass
Bioconductor
Oligo
7 days ago
tanya
• 0
• updated 6 days ago
Martin Morgan
25k
0
votes
3
replies
117
views
Unable to upload an App in shinyapps.io with bioconductor packages
shinny
graph
RBGL
16 days ago
Xavier-Andoni
• 0
• updated 7 days ago
Marcel Ramos
490
1
vote
2
replies
85
views
Question about nearest function in R package IRanges
nearest
IRanges
7 days ago
junhui.li11
• 0
• updated 6 days ago
Julie Zhu
♦ 4.3k
40,305 results • Page
1 of 807
Recent ...
Replies
Comment: ribosomeProfilingQC - countReads function - is it possible to consider library
by
alexandr.gopanenko
• 20
Hi Jianhong, Thank you very much for your response! I will try it soon! Best regards, Alexandr
Comment: Same methylation probe ID with different locus annotations in Illumina 27k and 4
by
Kevin Blighe
2.5k
I am admittedly not sure, but can only assume that Illumina, through experimentation, concluded that these probes had greater affinity for …
Answer: read nanopore Fastq file
by
James W. MacDonald
56k
You don't say what you want to do once you read it in. But anyway. ``` > library(Biostrings) ## I modified the FASTQ file in the Short…
Comment: Error when launching Shiny app in package sangeranalyseR
by
silonovsa25
• 0
Hi everyone, There are any variants to solve this mistake?
Answer: error when reading fastq file
by
James W. MacDonald
56k
If you have 'U' in your FASTQ files I think that will be a problem. I can barely understand C code, but in `read_solexa_fastq` it says `…
Votes
Answer: read nanopore Fastq file
Answer: error when reading fastq file
Error when launching Shiny app in package sangeranalyseR
Answer: DiffBind analysis for ATAC-Seq error Error processing one or more read files
Answer: DiffBind analysis for ATAC-Seq error Error processing one or more read files
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