Showing : genomicfiles • reset
3
votes
3
replies
1.1k
views
Parallel reading of Vcfs using VcfStack/RangedVcfStack
GenomicFiles BiocParallel
updated 6.8 years ago by 3.8k • written 6.9 years ago by ▴ 20
2
votes
2
replies
2.5k
views
How to randomly sample BAM files
rsamtools genomicalignments genomicfiles
updated 8.7 years ago by 25k • written 8.7 years ago by ▴ 70
1
vote
1
reply
1.4k
views
How to randomly sample bam files obtaining a subset of information (ex: binning locations)
genomicfiles rsamtools
updated 7.8 years ago by 25k • written 7.8 years ago by ▴ 10
4
votes
2
replies
1.3k
views
readGAlignmentPairs not working correctly when reading a bam file by chunks
rsamtools genomicalignments genomicfiles
updated 7.8 years ago by 16k • written 7.8 years ago by ▴ 30
1
vote
2
replies
739
views
The metadata from rowRanges is missing in the MAP function of GenomicFiles.
GenomicFiles
updated 5.0 years ago by 25k • written 5.0 years ago by ▴ 80
3
votes
2
replies
1.1k
views
Passing multiple arguments (like mapply) to the MAP-function in GenomicFiles.
genomicfiles reduceByRange
updated 6.7 years ago by ★ 6.8k • written 6.7 years ago by ▴ 170
3
votes
2
replies
964
views
ranges input for GenomicFiles
genomicfiles
updated 6.3 years ago by 25k • written 6.3 years ago by ▴ 80
0
votes
0
replies
605
views
Error in fragEnds[, 1] : incorrect number of dimensions while using printWigFile function in Basic4Cseq package
GenomicInteractions Basic4Cseq DNASeq GenomicFiles
2.8 years ago koushik • 0
0
votes
0
replies
978
views
[Bioc-devel] AnnotatioDbi Biostrings load order breaks GenomicFiles summary method
GO Biostrings rtracklayer GenomicRanges BiocParallel GenomicFiles
9.6 years ago Dan Tenenbaum ★ 8.2k
2
votes
6
replies
1.2k
views
memory leak when subsampling BAM
GenomicFiles ShortRead Rsamtools
3.2 years ago robmaz77 ▴ 20
10 results • Page 1 of 1
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Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Hi, Yes, I've tried this, but I am not sure if it is possible to assign `bquote` values to the names of a vector. In particular, if I use…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
Are you commenting on the OP's question, or adding a different question? If the latter, please start a new post rather than piggybacking on…
Answer: Math expression in shapeCustom legend in EnhancedVolcano by James W. MacDonald 65k
Use `bquote`. See section 4.6 in [the vignette][1]. [1]: https://bioconductor.org/packages/release/bioc/vignettes/EnhancedVolcano/in…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350
I was thinking about removing unwanted variations at the sample level (ie a transformation shared across genes) not at the gene level. Corr…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
That's an assumption used for normalization of a sample, not an assumption you can use for an individual model. We always normalize to atte…
Votes
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
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