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3
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updated 11 months ago by • 0 • written 6.6 years ago by • 0
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403
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"Details" section for specific software packages
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2
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3
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Keep getting this error "Warning: unable to access index for repository"?
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18
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2.5k
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problem installing ENmix package
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WGCNA: analysis of complex trait associations with regressions
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Store output of matchPWM()
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14 days ago • updated 1 day ago mat149 ▴ 70
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9 months ago Luca • 0
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5
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4
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644
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9 months ago anne.hoffrichter • 0
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9
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updated 9 months ago by ▴ 10 • written 9 months ago by ▴ 10
2
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8
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13 months ago • updated 11 months ago Luis • 0
5
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6
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867
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1
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3
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SRAdb: Error downloading sqlite files
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0
votes
2
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565
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Heat Map
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4
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Best way to handle tags of bam files
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2
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871
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Error: insufficient numeric precision during Log fold change shrinkage with apeglm
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updated 8 months ago by 42k • written 9 months ago by • 0
1
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5
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592
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ChIPpeakAnno annotatePeakInBatch output
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6
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How to get DMR for Infinium methylation EPIC v2
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2
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DESeq2 batch design
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updated 8 months ago by ★ 1.4k • written 9 months ago by ▴ 10
4
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7
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weird volcano plot
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updated 10 weeks ago by • 0 • written 6 months ago by ▴ 10
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DNAString: Standard checksum function?
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7
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Installing Local packages in Bioconductor
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2
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299
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RNAseq analysis
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2
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376
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Factor vs Character in design
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10 weeks ago • updated 9 weeks ago James Aiden • 0
2
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5
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9 months ago mohammedtoufiq91 ▴ 10
0
votes
3
replies
169
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Error retrieving ensembl gene id using biomaRt...
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2
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2
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325
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error in (function (classes, fdef, mtable) unable to find an inherited method for function logNormCounts for signature Seurat
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updated 10 months ago by • 0 • written 4.5 years ago by • 0
7
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6
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4.2k
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Conversion of UniProt to Ensembl
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updated 7 months ago by 690 • written 21 months ago by ▴ 20
2
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5
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removing the batch effect for vst counts and defining the batches in removeBatchEffect function
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updated 9 months ago by 50k • written 9 months ago by • 0
6
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9
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848
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biomaRt has encountered an unknown server error.
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updated 3 months ago by • 0 • written 3 months ago by • 0
0
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2
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156
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DESeq2 v1.35.0
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updated 13 days ago by 42k • written 13 days ago by • 0
3
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3
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407
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plotUMAP Gene Set Faceted
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updated 3 months ago by ▴ 160 • written 3 months ago by ★ 1.5k
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3
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3
replies
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2
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6
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DESeq2 Dispersion Per Condition
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updated 10 months ago by • 0 • written 8.1 years ago by ▴ 20
28
votes
21
replies
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deseq2 filter the low counts
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0
votes
3
replies
371
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Sign Output Values PADOG
PADOG
updated 6 months ago by • 0 • written 6 months ago by • 0
1
vote
2
replies
449
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EdgeR: Exact test and glmQLFTest produce very different results
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updated 5 months ago by 50k • written 5 months ago by • 0
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3
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2.2k
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Fail BiocManager::install(version='3.12')
BioManager
updated 8 weeks ago by ★ 4.1k • written 2.1 years ago by ▴ 20
4
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7
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Confused about the CPM and TMM normalization in edgeR
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updated 8 months ago by 50k • written 22 months ago by ▴ 30
2
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updated 4 months ago by ★ 1.4k • written 5 months ago by • 0
3
votes
6
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1.0k
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Query regarding to create custom organism database with AnnotationForge package (AnnotationForge::makeOrgPackageFromNCBI)
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10 months ago abhisek001 • 0
1
vote
6
replies
755
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BSgenome
updated 11 weeks ago by 65k • written 3 months ago by • 0
2
votes
8
replies
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Failure of beta estimates to converge in DESeq2 despite noncollinearity and reasonable counts
converge beta DESeq2
11 months ago Ndimensional ▴ 20
6
votes
11
replies
1.1k
views
Packages don't update, but no error or warning is thrown
Bioconductor
3 months ago • updated 12 weeks ago gernophil • 0
1,000 results • Page 2 of 20
Recent ...
Replies
Comment: Create protein sequences including variants from a VCF file by Yun • 0
This cannot work for a SNV file, since `injectSNPs` need a `SNPlocs` object
Comment: Can log2cpm be used for proteomics data normalization? by Daniel • 0
Thank you for the quick reply and I apologize for it being on the wrong thread but the "post tag" function wasn't working properly.
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Patadù ▴ 10
I have arranged the code again following the other post and also the script you suggested. Now, I managed to install `org.Vdahliae.eg.db`. …
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Patadù ▴ 10
Thanks again Guido, I will try to run the script you have suggested and see if I can install the package. Yes, I have seen this message a…
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Guido Hooiveld ★ 4.0k
FWIW: based on [previous posts][1] it is suggested to install like this: install.packages(pkgs="./org.Vdahliae.eg.db", repos=NULL, typ…
Votes
Comment: How to correctly adjust for gender in edgeR
Create protein sequences including variants from a VCF file
A: DEXSeq design formula
Answer: SGSeq: moving toward diffex from SGSeq analysis
Answer: How to design DEXSeq formula for multiple variables
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