Showing : bayespeak • reset
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[bug] BayesPeak cannot deal with RangedData input
BayesPeak bug
8.7 years ago balwierz ▴ 40
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Error in bayespeak function importing data
bayespeak
9.7 years ago Reed ▴ 10
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ChIPseq-style peak calling for paired-end sequencing?
Chipseq DNAseq ATAC bayespeak narrowpeaks
updated 9.9 years ago by 52k • written 9.9 years ago by ▴ 140
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chip-seq data
ChIPSeq chipseq BayesPeak ChIPSeq chipseq BayesPeak
12.6 years ago John linux-user ▴ 210
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Question about ChIPpeakAnno R package
AnnotationData annotate ChIPpeakAnno BayesPeak AnnotationData annotate ChIPpeakAnno
12.7 years ago Julie Zhu ★ 4.3k
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Upgrade bioconductor to version 2.6
BayesPeak BayesPeak
13.6 years ago Mary Ellen Fitzpatrick ▴ 20
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error in bayespeak function
ChIPSeq GO BSgenome BSgenome chipseq BayesPeak ChIPSeq GO BSgenome BSgenome chipseq
updated 13.8 years ago by ▴ 130 • written 13.8 years ago by ▴ 810
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BayesPeak and RangedData obj output
BayesPeak BayesPeak
updated 14.5 years ago by ▴ 130 • written 14.5 years ago by ▴ 30
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BayesPeak segfault woes
BayesPeak BayesPeak
updated 14.9 years ago by ▴ 130 • written 14.9 years ago by ▴ 270
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Comment: GSEA preranked analysis downstream of DEseq2 by Ajay • 0
`logFC * -log10(pval)` seems to be the pi-score proposed in this [paper][1] [1]: https://pmc.ncbi.nlm.nih.gov/articles/PMC3957066/
Comment: error in ChAMP loading file by janwilseo • 0
Any update on this post? I also had an issue with this. [erosion control](https://charlestonhydroseeding.com/)
Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k
Two things. First, the order of your term2gene is backwards (should be term and then gene, like the name), and by default `enricher` adjust…
Comment: Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis by donnycrimson • 0
One potential workaround might be to adjust for these factors using a combination of design matrices perhaps including batch as a covariate…
Comment: DESeq2 Design controlling for gender by donnycrimson • 0
On a lighter note, while you are tackling such complex data, you might enjoy a quick break playing the [Slope Game](https://slopegame.lol)…
Votes
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
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