Showing : genomicalignments • reset
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Complete variant toolbox: gmapR/VariantTools/VariantAnnotation - revived
VariantAnnotation Annotation GenomicRanges VariantAnnotation GenomicAlignments Annotation
11.3 years ago Valerie Obenchain ★ 6.8k
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Worker count specification in functions using bplapply from the BiocParallel pkg
VariantTools BiocParallel GenomicAlignments VariantTools BiocParallel GenomicAlignments
updated 11.4 years ago by 25k • written 11.4 years ago by ★ 13k
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GenomicAlignments and QNAME collision
RNASeq Cancer convert Rsamtools GenomicAlignments RNASeq Cancer convert Rsamtools
updated 11.4 years ago by ▴ 90 • written 11.4 years ago by ★ 6.8k
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7
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GenomicAlignments and QNAME collision
RNASeq GenomicAlignments RNASeq GenomicAlignments
updated 11.5 years ago by ★ 6.8k • written 11.5 years ago by ▴ 90
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A question about the function readGAlignmentPairs in GenomicRnages package
Alignment Cancer convert GenomicAlignments Alignment Cancer convert GenomicAlignments
updated 11.6 years ago by 16k • written 11.6 years ago by ▴ 50
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CIGAR-aware coverage
Coverage GenomicAlignments Coverage GenomicAlignments
11.7 years ago Hervé Pagès 16k
106 results • Page 3 of 3
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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…
Answer: Problem with the TMB plot by Kevin Blighe ★ 4.0k
Hi, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to filtering ap…
Answer: gene Set with high AUC score but no cells assigned to cell type by Kevin Blighe ★ 4.0k
Hi, You have correctly identified the issue: AUCell's automatic threshold selection is conservative by design, aiming for specificity to…
Answer: featureCounts -L: high unassigned:mapq fraction by Kevin Blighe ★ 4.0k
Hi Katarzyna, The discrepancy arises because your samtools stats were restricted to genic regions only, where alignments are typically o…
Votes
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
Answer: Suppress warning in RHDF5 write
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