1
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0
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912
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Possible to customize the parallel computation used in readGAlignments?
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3.2 years ago chen_ying ▴ 10
0
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0
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Gene co-expression network analysis with small sample size
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3.2 years ago Senthil • 0
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Edit alignment in msa
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3.2 years ago Luis • 0
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1
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1.2k
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' Update all/some/none? [a/s/n]: '
forensic expt
updated 3.2 years ago by • 0 • written 3.2 years ago by • 0
0
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3
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1.8k
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scRNA-seq: RS4' object has no attribute 'T'" in fastMNN R function
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3.2 years ago Madiha • 0
0
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1
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1.1k
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I want to convert the go enrichment result to a data frame (tidy data)with two column which one is the gene symbol and the other is go term. Any one…
GO.db GOfuncR GO GOSim goProfiles
updated 3.2 years ago by ▴ 780 • written 3.2 years ago by • 0
0
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698
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GenVisR - adding on genomic positions to CovGen graph
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3.2 years ago Amy_ • 0
0
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0
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864
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Gene Ontology on Streptococcus Pneumoniae genes sets
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3.2 years ago BioinFo.X • 0
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0
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548
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H bond prediction of two sequences
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3.2 years ago Marcus • 0
1
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0
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adjusted p-values with topGO elim.KS method
topGO Ontology DifferentialExpression
3.2 years ago Kevin Gregory ▴ 10
0
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1
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2.7k
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Treeplot by enrichplot
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updated 3.2 years ago by ★ 1.2k • written 3.3 years ago by • 0
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0
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question on the p value for VIPER results by dorothea
RNAseq VIPER Doth
3.3 years ago snowmattin • 0
0
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0
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Outliers
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updated 3.2 years ago by ★ 5.0k • written 3.3 years ago by • 0
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0
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HISAT2 and HTSEQ command
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3.3 years ago Maryam.sed1400 • 0
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0
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WCGNA: Using Eigengenes when correlating modules to external features? What about PC2, PC3???
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3.3 years ago Julieta • 0
2
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1
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1.3k
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WGCNA: weird issue of module with a single gene
network co-expression WGCNA
updated 3.3 years ago by ▴ 50 • written 3.3 years ago by ▴ 10
0
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0
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910
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weighting sample group
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3.3 years ago Sogand • 0
0
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0
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1.4k
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Simplify - clusterProfiler
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3.3 years ago estafana.t98 • 0
0
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2
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Error message from protein coding prediction with VariantAnnotation
R VariantAnnotation
3.3 years ago rwan.work • 0
1
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1
reply
1.3k
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Confused about design for RNA seq experiment
RNAseq ExperimentData RNAseq123 RNA ExperimentalDesign
updated 3.3 years ago by ★ 5.0k • written 3.3 years ago by ▴ 30
0
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0
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609
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Identification of tissue-specific exons using DEXSeq
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3.3 years ago osieman52 • 0
0
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0
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763
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how to create PHENO_DATA
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3.3 years ago marymshahi2021 • 0
0
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2
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Error when using tallyVariants with parallel jobs not returning results
VariantTools
updated 3.3 years ago by 6.7k • written 3.3 years ago by • 0
1
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0
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894
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Data format format for summarising each NGS read without collapsing into a count
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3.3 years ago Rick ▴ 10
0
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1
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2.4k
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[ NEED HELP >:( ] ggtree Installation Error
ggtree
updated 3.3 years ago by 4.2k • written 3.3 years ago by • 0
1
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1
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issue with biomaRt ENSEMBL_MART_SNP
biomaRt
updated 3.3 years ago by ★ 6.6k • written 3.3 years ago by ▴ 10
0
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0
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745
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DEXSeq: mcols(dxd)$fullBetaConv either contains TRUE or NA
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3.3 years ago Matthias Munz ▴ 20
0
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0
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773
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GO-terms Semantic Similarity Measures: How to decide which method(s) to use?
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3.3 years ago Andrew • 0
0
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0
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Finding DEGs between two different datasets using limma
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3.3 years ago mfaleevs • 0
0
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2
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ERROR: failed to find the gene identifier attribute in the 9th column of the provided GTF file.
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3.3 years ago KMS ▴ 20
0
votes
5
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3.1k
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How to add a BioConductor package to a Docker image based on rocker/shiny
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3.3 years ago Sam ▴ 10
1
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3
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read.bismark() ->Error in manager$availability[[as.character(result$node)]] <- TRUE : wrong args for environment subassignment
methylSig bsseq
updated 3.3 years ago by ▴ 760 • written 3.3 years ago by • 0
0
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0
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Query on TCGA
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3.3 years ago hemangininaik09 • 0
0
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0
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1.8k
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Combining multiple MTX (matrix market) files to HDF5 Array format
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3.3 years ago merv ▴ 150
1
vote
4
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1.5k
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Error of PWM not colsum to 1 from package DiffLogo or seqLogo
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3.3 years ago zhxiaokang ▴ 20
0
votes
1
reply
1.1k
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getBM Error with certain attribute combinations
biomaRt ensembldb
updated 3.3 years ago by ★ 5.0k • written 3.3 years ago by • 0
0
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0
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Error in GDCDownload and GDCPrepare for TCGA-PAAD Dataset
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3.3 years ago Manav • 0
0
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0
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821
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Tuning the MetaVolcanoR plots
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3.3 years ago JAcky • 0
0
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0
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840
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maSigPro visualizing individually each plot from each cluster
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3.3 years ago oseias.rf.junior • 0
1
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1
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1.4k
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Unable to install "scruff" with BiocManager::install()
scruff Install ShortRead
updated 3.3 years ago by 4.2k • written 3.3 years ago by • 0
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2
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long computing time for TSS enrichment score
ATACSeq
updated 2.3 years ago by • 0 • written 3.3 years ago by • 0
0
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1
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WGCNA - Network construction and module detection
gene Clustering wgcna flashclust
updated 3.3 years ago by ▴ 50 • written 3.3 years ago by ▴ 20
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2
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getSRAdbFile() does not work
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3.3 years ago jfertaj ▴ 30
0
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1
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2.5k
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Complex Heatmap - correlation matrix - how to have exact same annotation with same colors for rows and columns?
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updated 3.3 years ago by ▴ 290 • written 3.3 years ago by • 0
0
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0
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Cluster profiler - adj p-value differ from Enrichr
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3.3 years ago angkoo ▴ 10
4
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6
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2.5k
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HTSeq command option for single-end reads
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3.3 years ago Maryam.sed1400 • 0
0
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1
reply
1.4k
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How does MAST caculate log fc
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3.3 years ago • updated 6 months ago Chenghao ▴ 10
0
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3
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2.2k
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using of z score in Differentially Expression Analysis
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updated 3.3 years ago by ★ 5.0k • written 3.3 years ago by • 0
0
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1
reply
998
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Interpret MetaVolcanoR plot
MetaVolcanoR
updated 3.3 years ago by ★ 4.0k • written 3.3 years ago by • 0
0
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2
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Microbiome 16S amplicon analysis in dada2
bioinformatics DADA2
3.3 years ago anasjamshed1994 • 0
1,000 results • Page 18 of 20
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Answer: Question about RE-agnostic mode for intact Hi-C and Micro-C normalization(HiCDCP by victor04052024 • 0
You write quite well, and the content is very interesting. I'll provide you a link to my page [granny 2](https://granny2.io).
Answer: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink by victor04052024 • 0
The information is interesting, and your writing is excellent. I will provide you a link to my website [Baseball bros](https://baseball-gam…
Comment: segfault in edgeR glmQLFit by Gordon Smyth 53k
We have committed a bug fix now to edgeR on both the release and developmental Bioconductor repositories.
Answer: Ensembl site unresponsive via biomaRt by horaortiz8 • 0
I appreciate the link. I'll get in touch with them directly; I wish they had a status page of some kind. https://www.ensembl.org/Help/Cont…
Comment: segfault in edgeR glmQLFit by Mark • 0
Thanks! We had been considering some of these adjustments as well, given the small number of features and total reads. Your advice is well-…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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