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readvcf
•
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0
votes
0
replies
1.1k
views
VariantAnnotation::readVcf incorrectly processes GATK Mutect2 vcf INFO field AS_SB_TABLE
vcf
AS_SB_TABLE
readVcf
Mutect2
VariantAnnotation
3.0 years ago
therealgenna
• 0
1
vote
12
replies
5.1k
views
readVcf does not recognize tabix index
VariantAnnotation
readvcf
tabix
updated 4.9 years ago by
Vincent J. Carey, Jr.
6.7k • written 4.9 years ago by
naive
• 0
0
votes
2
replies
2.4k
views
readVCF requires the argument "genome". What does it stand for?
Genome
readVcf
VariantAnnotation
4.9 years ago
naive
• 0
3
votes
4
replies
2.5k
views
Problem when transforming Platypus vcf to VRanges
variantannotation
vcf
readvcf
vranges
updated 7.6 years ago by
Michael Lawrence
★ 11k • written 7.6 years ago by
david.mas
• 0
2
votes
5
replies
3.6k
views
VariantAnnotation: Error with ScanVcfParam
variantannotation
vcf
readvcf
filtervcf
scanvcfparam
8.6 years ago
Didi
▴ 10
1
vote
4
replies
2.9k
views
cannot allocate memory?
readVcf
updated 8.8 years ago by
Martin Morgan
25k • written 8.8 years ago by
Haiying.Kong
▴ 110
0
votes
2
replies
1.5k
views
does readVcf mistakenly ignore ploidy for missing genotypes?
readvcf
gt
missing
VariantAnnotation
9.0 years ago
TimothéeFlutre
▴ 80
2
votes
4
replies
2.8k
views
Best way to create a VRanges object from a large VCF file?
variantannotation
readvcf
readvcfasvranges
vcf
updated 9.1 years ago by
Michael Lawrence
★ 11k • written 9.1 years ago by
ruben.drews
• 0
0
votes
2
replies
2.3k
views
Subsetting info columns from a VCF and getting rsID for some row names?
R
variantannotation
vcf
scanvcfparam
readvcf
updated 9.7 years ago by
Michael Lawrence
★ 11k • written 9.7 years ago by
emily.mccann
• 0
0
votes
2
replies
2.2k
views
Duplicated rows in readVcf output
variantannotation
readvcf
updated 9.9 years ago by
Valerie Obenchain
★ 6.8k • written 9.9 years ago by
nicolas.o.rode
• 0
0
votes
2
replies
2.2k
views
mutational signatures problems
bsgenome
readvcf
tcga
annotation
somaticsignatures
updated 17 months ago by
Danyiel
• 0 • written 10.0 years ago by
jolligoodfellow
• 0
0
votes
4
replies
3.4k
views
How to import vcf with multi sample?
vcf
readvcf
readvcfasvranges
10.2 years ago
Marcin Grzybowski
• 0
1
vote
1
reply
1.6k
views
Suppressing the ID value from writeVcf
readvcf
writevcf
updated 10.2 years ago by
Valerie Obenchain
★ 6.8k • written 10.3 years ago by
fongchunchan
▴ 30
2
votes
1
reply
2.5k
views
readVCF with 1000 genomes data from 20130502 fails to return genotype information
readvcf
vcf
tabix
updated 10.6 years ago by
Valerie Obenchain
★ 6.8k • written 10.6 years ago by
Simon Coetzee
▴ 50
2
votes
9
replies
4.0k
views
ReadVCF not reading samples
readvcf
vcf
variantannotation
10.8 years ago
askates
▴ 10
0
votes
21
replies
6.3k
views
VariantAnnotation Errors and void outputs
variantannotation
readvcf
10.8 years ago
pifferdavide
• 0
1
vote
5
replies
5.5k
views
Converting a DNAStringSetList to characters quickly
readVcf
DNAStringSet
DNAStringSetList
variantannotation
readvcf
10.9 years ago • updated 10.8 years ago
dan.gatti
• 0
0
votes
2
replies
2.8k
views
Error reading vcf converted from bed file
readvcf
plink
file conversion
bed
bioc-devel
10.9 years ago
mjsduncan
• 0
2
votes
3
replies
3.2k
views
Metadata Missing from vcf when reading in with readVcfAsVRanges
variantannotation
vranges
readvcf
readvcfasvranges
metadata
11.0 years ago
summerela
• 0
1
vote
12
replies
4.0k
views
VariantAnnotation: no method for function 'path' for signature 'character'
variantannotation
readvcf
readgt
updated 11.2 years ago by
Valerie Obenchain
★ 6.8k • written 11.2 years ago by
Kipper Fletez-Brant
▴ 150
0
votes
1
reply
1.9k
views
readVCF (VariantAnnotation) problem with mismatched header and info fields in vcf file
annotation
vcf
readvcf
variantannotation
11.2 years ago
jls2282
• 0
2
votes
3
replies
1.8k
views
readVcf skipping CS field in INFO
variantannotation
readVcf
updated 11.3 years ago by
Valerie Obenchain
★ 6.8k • written 11.3 years ago by
Peter Hickey
▴ 760
0
votes
5
replies
2.5k
views
VariantAnnotation VCF read error
variantannotation
readvcf
updated 11.3 years ago by
Valerie Obenchain
★ 6.8k • written 11.3 years ago by
JK
▴ 10
23 results • Page
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Comment: Question on processing compound protein groups in limpa
by
JKim
• 0
Many thanks. I appreciate your advice.
Answer: Question on processing compound protein groups in limpa
by
Gordon Smyth
53k
Different people have different ways of dealing with compound protein groups. You could just leave them in the analysis, in which case limp…
Answer: Correct usage of limpa for protein input
by
Gordon Smyth
53k
limpa can work on protein-level quantifications, but they must be intensity-based and must be on the log scale. From what I read (<https://…
Comment: A problem occurs when running the monocle2
by
a2a2hset32aa
• 0
Troubleshooting monocle2 errors in R 4.5.1 often points to package incompatibilities, particularly with newer versions of igraph. For resea…
Comment: Deadline Extended: EuroBioC2026 Call for Abstracts
by
a2a2hset32aa
• 0
Attending EuroBioC2026 is an excellent way for researchers to explore the intersection of technology and biology. For those seeking high qu…
Votes
Answer: Question on processing compound protein groups in limpa
Answer: Correct usage of limpa for protein input
Answer: Correct usage of limpa for protein input
Answer: Correct usage of limpa for protein input
A: Interpretaion of dendrogram height in WGCNA?
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