0
votes
2
replies
414
views
ORFik: spliced 5utr regions
splicing 5utr ORFik
updated 6 weeks ago by ★ 4.0k • written 5 months ago by • 0
0
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2
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538
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BiocManager::install() doesn't work
Install Biocond
updated 6 weeks ago by ★ 4.0k • written 5 months ago by • 0
0
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2
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386
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Results with PON give more variants
mutect2 variants pon
written 5 months ago by ▴ 10
0
votes
2
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389
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Empty boxes in treemap plot rrvgo package
rrvgo
written 5 months ago by • 0
0
votes
1
reply
315
views
CRISPRSeek Question: changing weight and gRNA.size causes error
CRISPRseek CRISPR
updated 6 weeks ago by ★ 4.0k • written 5 months ago by • 0
0
votes
2
replies
539
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Feedback needed on new user-friendly BED file tool
bedbaser offtopic
updated 6 weeks ago by ★ 4.0k • written 5 months ago by • 0
0
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1
reply
299
views
sigDF object in sesame
sesame sesameData
updated 6 weeks ago by ★ 4.0k • written 4 months ago by • 0
0
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3
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420
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Create consensusMatrix for codon bases
Biostrings
updated 6 weeks ago by ★ 4.0k • written 4 months ago by • 0
0
votes
2
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494
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Memory error while running alignments
DECIPHER Alignment
updated 6 weeks ago by ★ 4.0k • written 5 months ago by • 0
1
vote
11
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2.0k
views
Using DESeq2 on single cell RNA Seq data of same cell type but different conditions that were pseudo bulked
DESeq2 scRNAseq
updated 6 weeks ago by ★ 4.0k • written 4 months ago by • 0
0
votes
1
reply
316
views
Finding duplicated entries in GRangesList
GenomicRanges
updated 7 weeks ago by ★ 4.0k • written 4 months ago by • 0
0
votes
2
replies
343
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DESeq2 on non-RNASeq counts data
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0
votes
2
replies
492
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After running samtools, the featureCounts command crashed.
RNASeqData Bioconductor RNASeq
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0
votes
2
replies
575
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Problem with the TMB plot
Bioconductor
written 3 months ago by • 0
0
votes
1
reply
321
views
mzR-Rcpp compiler version issue
Rcpp Perseus mzR
updated 7 weeks ago by 1.6k • written 4 months ago by • 0
2
votes
3
replies
551
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DESeq2 design for haplotype MPRA
Bioconductor
written 12 weeks ago by • 0
0
votes
1
reply
254
views
Must I do pseudobulk analysis on Cell Surface Protein Labeling data of Single Cell RNA Sequencing
scRNAseq
updated 7 weeks ago by ★ 4.0k • written 8 weeks ago by • 0
0
votes
0
replies
314
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Corrupted SQLite while trying to install PANTHER.db?
SQLite PANTHER.db
updated 7 weeks ago by ★ 4.0k • written 4 months ago by • 0
0
votes
1
reply
373
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org.Ss.eg.db MAMDC4 maps to incorrect UNIPROT key
MAMDC4 org.Ss.eg.db AnnotationDbi
written 4 months ago by • 0
0
votes
1
reply
340
views
Length of 'dimnames' [1] not equal to array extent
SingleCellExperiment singlecelle scRNAseq
updated 7 weeks ago by ★ 4.0k • written 4 months ago by • 0
0
votes
1
reply
369
views
Extract snp information from genomic regions with biomaRt -> "oaries_snp"
biomaRt
updated 7 weeks ago by ★ 4.0k • written 4 months ago by • 0
0
votes
2
replies
350
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3-factor DESeq2 trime-series analysis
time-series DESeq2
updated 7 weeks ago by ★ 4.0k • written 4 months ago by • 0
0
votes
1
reply
301
views
Questions about pseudo counts from RUVSeq
RUVSeq
updated 7 weeks ago by ★ 4.0k • written 4 months ago by • 0
0
votes
0
replies
311
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Problem with viewGO(ref_path) in SpliceWiz
Bioconductor SpliceWiz
updated 7 weeks ago by ★ 4.0k • written 3 months ago by • 0
0
votes
1
reply
330
views
GOseq Probability Weight Function bad fit
goseq
written 3 months ago by • 0
0
votes
0
replies
157
views
[DESeq2] Changing dispersion estimates between runs of DESeq2
DESeq2
updated 7 weeks ago by ★ 4.0k • written 8 weeks ago by • 0
0
votes
2
replies
168
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APAlyzer
APAlyzer
updated 7 weeks ago by ★ 4.0k • written 7 weeks ago by ▴ 10
2
votes
2
replies
300
views
Identifying differentially expressed genes in individual samples from a large cohort
limma DifferentialExpression
7 weeks ago jamie.gearing ▴ 60
0
votes
2
replies
225
views
Alternative to BrainArray custom CDF packages for Affymetrix chips?
Bioconductor
updated 7 weeks ago by ★ 4.1k • written 8 weeks ago by ▴ 600
1
vote
2
replies
291
views
Error installing Seqinfo
Seqinfo S4Vectors
updated 7 weeks ago by 4.2k • written 7 weeks ago by • 0
1
vote
0
replies
108
views
News: Bioconductor Seminar Series - Dec 2: Deep-learning Gene Perturbation Effect Prediction
Bioconductor
8 weeks ago Maria Doyle ▴ 110
0
votes
4
replies
258
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Getting a large intercept with DESeq2
DESeq2 DifferentialExpression TimeCourse
8 weeks ago • updated 7 weeks ago Denise • 0
2
votes
2
replies
229
views
Post translational modifications and phosphoproteomics in limpa?
limpa
8 weeks ago • updated 7 weeks ago james.eapen • 0
0
votes
1
reply
143
views
Add additional maintainer for MOFA2
MOFA2
updated 8 weeks ago by 4.2k • written 8 weeks ago by • 0
1
vote
3
replies
536
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gene Set with high AUC score but no cells assigned to cell type
AUCell
3 months ago • updated 6 weeks ago gogeni5529 • 0
0
votes
2
replies
319
views
featureCounts -L: high unassigned:mapq fraction
Bioconductor
written 3 months ago by • 0
1
vote
2
replies
470
views
Streamlining the computing time for MiloDE p-value correction in large dataset?
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updated 8 weeks ago by ★ 4.0k • written 3 months ago by • 0
1
vote
2
replies
423
views
incomplete imputation of missing values with LEA impute() function
Bioconductor LEA
updated 8 weeks ago by ★ 4.0k • written 3 months ago by • 0
0
votes
2
replies
466
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A problem occurs when running the monocle2
monocle
written 3 months ago by • 0
5
votes
3
replies
484
views
Issues with downloading biomaRt - SeqInfo and S4 Vectors
S4Vectors biomaRt Seqinfo
updated 9 weeks ago by 68k • written 9 weeks ago by ▴ 10
2
votes
2
replies
570
views
What R/Bioconductor tools would you recommend for the analysis of sncRNA, specifically piRNA?
Bioconductor
3 months ago • updated 8 weeks ago Matthew Thornton ▴ 390
0
votes
2
replies
181
views
VariantAnnotation not does escape = within header string quotes
VariantAnnotation
updated 8 weeks ago by ★ 4.0k • written 9 weeks ago by ▴ 40
0
votes
2
replies
273
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Setting up a DESeq2 Design with Paired Data
DESeq2
9 weeks ago Alexander • 0
2
votes
2
replies
166
views
Suppress warning in RHDF5 write
rhdf5
9 weeks ago nicolas.lhuillier • 0
2
votes
2
replies
204
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Failure to download resources (MeSHDb) from AnnotationHub
MeSHDb AnnotationHub
9 weeks ago Steve Lianoglou ★ 13k
0
votes
3
replies
299
views
Integration: Paired-end vs healthy single-end from a different source
Bioconductor
written 9 weeks ago by • 0
1
vote
4
replies
442
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"Watched Tags" are being erased rather than updated
Bioconductor
updated 7 weeks ago by • 0 • written 10 weeks ago by ▴ 10
0
votes
1
reply
252
views
Question about collapsing ASVs by genus level during DESeq2 analysis
Bioconductor
updated 9 weeks ago by 43k • written 3 months ago by • 0
1
vote
2
replies
383
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Can limma be used with module eigengenes instead of genes?
limma WGCNA GSVA
written 5 months ago by ▴ 20
0
votes
7
replies
2.2k
views
News: EuroBioC2023 abstract submission is open!
presentation EuroBioC2023 Conference community Bioconductor
written 2.9 years ago by ▴ 110
46,711 results • Page 2 of 935
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Comment: Ensembl plants at annotationHub? by jwp48 • 0
Nope I don't mind haha! Anyway thanks so much! Thats super kind of you!
Answer: Combining two proteomics datasets with limpa by Gordon Smyth 53k
Hi Andrew, We don't have that much experience combining different datasets with limpa yet, but my feeling is that the same DPC should be u…
Comment: Guitar R package requires update due to dependency GenomicFeatures by ferran.llobet.cabau ▴ 10
Thank you @seandavi for your feedback. I followed your recommendations and generated a [pull request][1] including the fix for this issue…
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Hope you don't mind I am not Johannes... ;-) Note that you nowadays can generate these yourselves using the `docker` image Johannes made av…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0
Thanks for the reminder about DiffVar (for that project I ended up using GAMLSS in the end and haven't touched DiffVar since) and the alter…
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A: What is logFC and "B" in methylation analysis ??
limma moderated t-statistics and B-statistics
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A: how to control age and gender effect in expression data using DESeq2
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