Showing : variantfiltering • reset
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Variant Filtering on very large VCF files
VariantAnnotation VariantFiltering
2.3 years ago Bogdan ▴ 670
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748
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VariantFiltering error
VariantFiltering
updated 2.6 years ago by ★ 3.4k • written 2.6 years ago by ▴ 90
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Confused about understanding the output and statistics of BAM file after STAR aligning
RNAseq123 VariantFiltering Alignment VariantAnnotation
updated 3.2 years ago by 68k • written 3.2 years ago by ▴ 30
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library VaraintFiltration looking for explanation of pedigree file
bioconductor variantfiltering
8.4 years ago Claus.Hultschig • 0
3
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2.0k
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filtering VCF files
variantannotation variantfiltering
updated 8.8 years ago by ★ 11k • written 8.8 years ago by ▴ 670
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Problems with autosomalRecessiveHomozygous
VariantFiltering
10.5 years ago claire.simpson • 0
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News: Hands-on Bioconductor course, 7 Sept 2015, Tokyo
sequencing transcription variantfiltering annotation News
10.6 years ago Matthew Ritchie ▴ 1000
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retrieving phastConsScores via 'scores' from 'VariantFiltering' shows inconsistency
variantfiltering phastcons
updated 10.7 years ago by ★ 3.4k • written 10.7 years ago by ▴ 40
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problems installing VariantFiltering package
VariantFiltering VariantFiltering
11.7 years ago Robert Castelo ★ 3.4k
9 results • Page 1 of 1
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Answer: When to use edgeR or limma by James W. MacDonald 68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Answer: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
The short answer is that limpa reads standard feature-level intensities from Spectronaut or other quantifications tools. limpa is designed …
Comment: Question about the filterByExpr function inputs in edgeR by mohammedtoufiq91 ▴ 10
@gordonsmyth Noted, thank you very much.
Comment: Question about the filterByExpr function inputs in edgeR by Gordon Smyth 53k
Regarding edgeR v4 filtering, I didn't mention anything about a minimum count of 10 but rather said "a positive count". So a minimalistic f…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by JKim • 0
Hi Emily, He left some comments regarding normalization. Here is the relevant quote: > The EList object produced by dpcQuant(), containi…
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A: deseq2 - paired samples in 2 sequencing types with very different library sizes
Comment: Question about the filterByExpr function inputs in edgeR
Answer: Question about the filterByExpr function inputs in edgeR
Answer: Question about the filterByExpr function inputs in edgeR
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
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