Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
readvcf
•
reset
0
votes
0
replies
711
views
VariantAnnotation::readVcf incorrectly processes GATK Mutect2 vcf INFO field AS_SB_TABLE
vcf
AS_SB_TABLE
readVcf
Mutect2
VariantAnnotation
22 months ago
therealgenna
• 0
1
vote
12
replies
3.8k
views
readVcf does not recognize tabix index
VariantAnnotation
readvcf
tabix
updated 3.7 years ago by
Vincent J. Carey, Jr.
6.7k • written 3.8 years ago by
naive
• 0
0
votes
2
replies
1.6k
views
readVCF requires the argument "genome". What does it stand for?
Genome
readVcf
VariantAnnotation
3.8 years ago
naive
• 0
3
votes
4
replies
2.0k
views
Problem when transforming Platypus vcf to VRanges
variantannotation
vcf
readvcf
vranges
updated 6.5 years ago by
Michael Lawrence
★ 11k • written 6.5 years ago by
david.mas
• 0
2
votes
5
replies
2.9k
views
VariantAnnotation: Error with ScanVcfParam
variantannotation
vcf
readvcf
filtervcf
scanvcfparam
7.4 years ago
Didi
▴ 10
1
vote
4
replies
2.4k
views
cannot allocate memory?
readVcf
updated 7.6 years ago by
Martin Morgan
25k • written 7.6 years ago by
Haiying.Kong
▴ 110
0
votes
2
replies
1.2k
views
does readVcf mistakenly ignore ploidy for missing genotypes?
readvcf
gt
missing
VariantAnnotation
7.8 years ago
TimothéeFlutre
▴ 80
2
votes
4
replies
2.3k
views
Best way to create a VRanges object from a large VCF file?
variantannotation
readvcf
readvcfasvranges
vcf
updated 7.9 years ago by
Michael Lawrence
★ 11k • written 8.0 years ago by
ruben.drews
• 0
0
votes
2
replies
1.8k
views
Subsetting info columns from a VCF and getting rsID for some row names?
R
variantannotation
vcf
scanvcfparam
readvcf
updated 8.5 years ago by
Michael Lawrence
★ 11k • written 8.5 years ago by
emily.mccann
• 0
0
votes
2
replies
1.8k
views
Duplicated rows in readVcf output
variantannotation
readvcf
updated 8.7 years ago by
Valerie Obenchain
★ 6.8k • written 8.7 years ago by
nicolas.o.rode
• 0
0
votes
2
replies
1.8k
views
mutational signatures problems
bsgenome
readvcf
tcga
annotation
somaticsignatures
updated 3 months ago by
Danyiel
• 0 • written 8.8 years ago by
jolligoodfellow
• 0
0
votes
4
replies
2.9k
views
How to import vcf with multi sample?
vcf
readvcf
readvcfasvranges
9.0 years ago
Marcin Grzybowski
• 0
1
vote
1
reply
1.3k
views
Suppressing the ID value from writeVcf
readvcf
writevcf
updated 9.1 years ago by
Valerie Obenchain
★ 6.8k • written 9.1 years ago by
fongchunchan
▴ 30
2
votes
1
reply
1.6k
views
readVCF with 1000 genomes data from 20130502 fails to return genotype information
readvcf
vcf
tabix
updated 9.4 years ago by
Valerie Obenchain
★ 6.8k • written 9.4 years ago by
Simon Coetzee
▴ 50
2
votes
9
replies
3.1k
views
ReadVCF not reading samples
readvcf
vcf
variantannotation
9.6 years ago
askates
▴ 10
0
votes
21
replies
4.9k
views
VariantAnnotation Errors and void outputs
variantannotation
readvcf
9.6 years ago
pifferdavide
• 0
1
vote
5
replies
4.7k
views
Converting a DNAStringSetList to characters quickly
readVcf
DNAStringSet
DNAStringSetList
variantannotation
readvcf
9.7 years ago
dan.gatti
• 0
0
votes
2
replies
2.3k
views
Error reading vcf converted from bed file
readvcf
plink
file conversion
bed
bioc-devel
9.8 years ago
mjsduncan
• 0
2
votes
3
replies
2.6k
views
Metadata Missing from vcf when reading in with readVcfAsVRanges
variantannotation
vranges
readvcf
readvcfasvranges
metadata
9.8 years ago
summerela
• 0
1
vote
12
replies
3.1k
views
VariantAnnotation: no method for function 'path' for signature 'character'
variantannotation
readvcf
readgt
updated 10.0 years ago by
Valerie Obenchain
★ 6.8k • written 10.1 years ago by
Kipper Fletez-Brant
▴ 150
0
votes
1
reply
1.6k
views
readVCF (VariantAnnotation) problem with mismatched header and info fields in vcf file
annotation
vcf
readvcf
variantannotation
10.1 years ago
jls2282
• 0
2
votes
3
replies
1.5k
views
readVcf skipping CS field in INFO
variantannotation
readVcf
updated 10.1 years ago by
Valerie Obenchain
★ 6.8k • written 10.2 years ago by
Peter Hickey
▴ 740
0
votes
5
replies
1.9k
views
VariantAnnotation VCF read error
variantannotation
readvcf
updated 10.1 years ago by
Valerie Obenchain
★ 6.8k • written 10.1 years ago by
JK
▴ 10
23 results • Page
1 of 1
Recent ...
Replies
Comment: Cross-validation with multiple control subgroups in limma
by
Ali Barry
▴ 40
Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …
Answer: Cross-validation with multiple control subgroups in limma
by
Gordon Smyth
52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
by
Robert Castelo
★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS
by
Aidan
▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
by
Michael Love
43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Votes
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
Awards
• All
Popular Question
to
Ali Barry
▴ 40
Popular Question
to
gabriel.hoffman
▴ 170
Popular Question
to
Jenny Drnevich
★ 2.0k
Popular Question
to
martin.grigorov
▴ 10
Scholar
to
James W. MacDonald
67k
Locations
• All
Hong Kong,
16 minutes ago
WEHI, Melbourne, Australia,
30 minutes ago
EMBL Heidelberg,
46 minutes ago
Finland,
1 hour ago
China,
3 hours ago
Traffic: 788 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6