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filtervcf
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2
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5
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2.6k
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VariantAnnotation: Error with ScanVcfParam
variantannotation
vcf
readvcf
filtervcf
scanvcfparam
6.7 years ago
Didi
▴ 10
5
votes
13
replies
3.0k
views
about filtering variants in a VCF file
filtervcf
updated 7.3 years ago by
Martin Morgan
25k • written 7.3 years ago by
Bogdan
▴ 670
0
votes
1
reply
987
views
VariantAnnotation -filterVcf/FilterRules - 3 fxns as list to FilterRules throughs and erro
filtervcf
variantannotation
updated 7.5 years ago by
Martin Morgan
25k • written 7.5 years ago by
stephen sefick
▴ 60
2
votes
1
reply
1.2k
views
Error in extractROWS(x, eval(filter, x))
variantannotation
filtervcf
updated 8.5 years ago by
Michael Lawrence
★ 11k • written 8.5 years ago by
TimothéeFlutre
▴ 80
2
votes
2
replies
1.4k
views
a filter works alone but not with other filters
variantannotation
vcf
filtervcf
updated 8.5 years ago by
Martin Morgan
25k • written 8.5 years ago by
TimothéeFlutre
▴ 80
5
votes
2
replies
1.1k
views
filter "isSnp" for VCF
variantannotation
filtervcf
vcf
updated 8.5 years ago by
Michael Lawrence
★ 11k • written 8.5 years ago by
TimothéeFlutre
▴ 80
0
votes
2
replies
1.5k
views
filterVcf: error with param argument
VariantAnnotation
filterVcf
ScanVcfParam
vcf
writeVcf
updated 8.7 years ago by
Martin Morgan
25k • written 8.7 years ago by
pau.puigdevall
• 0
3
votes
5
replies
1.5k
views
filterVcf: crash with isSNV() filter argument
VariantAnnotation
filterVcf
8.7 years ago
pau.puigdevall
• 0
4
votes
4
replies
2.0k
views
readVcfAsVRanges + FilterRules
variantannotation
filterVcf
readvcfasvranges
filterRules
updated 9.2 years ago by
Martin Morgan
25k • written 9.2 years ago by
Sigve Nakken
▴ 50
9 results • Page
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Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
> I am just re-processing due to being uncertain about how they used the edgeR analysis to reach gene level edgeR devs published something…
Comment: Differences in differential analysis methods for RNA-Seq
by
james.zhang20
• 0
Thanks for the explanations, it has helped clarify some things. Unfortunately, I am working from an early access public dataset (https://do…
Comment: Deseq2 and Normalization of RNA sequencing data
by
ATpoint
★ 4.1k
There is no expectation of normality that is realistic in terms of expression level. Levels are widely different between genes, and counts …
Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…
Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
• 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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