Showing : tophat • reset
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python and R
snpeff python tophat r RNAseq123
updated 4.3 years ago by ★ 4.0k • written 4.3 years ago by • 0
0
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1
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1.3k
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Is possible to use NOISeq with counts from RSubread?
noiseq rsubread tophat bowtie bowtie2
6.4 years ago Marcelo Laia ▴ 450
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1
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1.4k
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Filtering Tophat/cufflinks data for GSEA with topGO
topGO tophat kolmogorov-smirnov test
updated 8.3 years ago by 68k • written 8.3 years ago by • 0
2
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3
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2.7k
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SystemPipeR: alignments with ambiguous pairing were dumped.
R rnaseq tophat summarizeoverlaps systempiper
updated 9.0 years ago by ★ 1.7k • written 9.0 years ago by • 0
2
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9
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8.8k
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Multiple alignments (multi-mapped reads) and DESeq/edgeR pipeline
deseq deseq2 edger tophat bowtie
10.4 years ago ysdel ▴ 40
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3
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2.8k
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Error when counting reads in genes with summarizeOverlaps (Genomic-Aligments package)
rnaseq summarizeOverlaps deseq2 tophat genomicalignments
updated 11.0 years ago by ★ 8.2k • written 11.0 years ago by ▴ 20
6 results • Page 1 of 1
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Answer: Post translational modifications and phosphoproteomics in limpa? by Gordon Smyth 53k
Yes, we use limpa for PTMs ourselves. I assume your data is preprocessed so that each row corresponds to a PTM. You replace dpcQuant() with…
Comment: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif by Matthew Thornton ▴ 380
WOW! Thank you so much for the information. I will do this.
Comment: "Watched Tags" are being erased rather than updated by RalphSavage99 • 0
Thanks for sharing https://github.com/Bioconductor/support.bioconductor.org/issues/112
Answer: Add additional maintainer for MOFA2 by shepherl 4.2k
These requests are best on the bioc-devel @ r-project.org or a request to maintainer @ bioconductor.org -- We would ideally need the curre…
Answer: After running samtools, the featureCounts command crashed. by Kevin Blighe ★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Votes
Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
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