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customprodb
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0
votes
1
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872
views
customProDB easyrun error in generating a custom protein database: Error in keepSeqlevels(anno, seqlevels(galn), pruning.mode = "coarse")
customProDB
2.4 years ago
Esraa
• 0
0
votes
1
reply
887
views
Calculate RPKMs and Output proteins pass the cutoff into FASTA file ... Error in keepSeqlevels(anno, seqlevels(galn), pruning.mode = "coarse") : i…
customProDB
easyrun
error
mm10
Mus_musculus_Data
updated 2.5 years ago by
James W. MacDonald
68k • written 2.5 years ago by
Esraa
• 0
0
votes
0
replies
543
views
customProDB: error aberrant fasta from SNV
customProDB
2.8 years ago
finoa.li
• 0
0
votes
0
replies
787
views
CustomProDB: specify a snp dataset to be used for the SNP annotation
customProDB
3.3 years ago
04.marshal-decibel
• 0
0
votes
0
replies
1.1k
views
How to get the chrominfo from ENSEMBL? (biomaRt and customProDB)
biomaRt
customProDB
3.3 years ago
04.marshal-decibel
• 0
0
votes
1
reply
1.1k
views
customProDB: function PrepareAnnotationEnsembl() not working (biomart issue?)
customProDB
Ensembl connection
biomart
6.0 years ago
laura.fancello
• 0
0
votes
1
reply
1.3k
views
CustomProDB InputVcf() - Issue getting the GRanges INDEL object from VCF file
vcf
snv
gatk
customprodb
inputvcf
6.3 years ago
Elena.M
• 0
4
votes
9
replies
4.5k
views
Create protein sequences including variants from a VCF file
VariantAnnotation
customProDB
updated 18 months ago by
Yun
• 0 • written 6.7 years ago by
daniel.magnus.bader
▴ 50
0
votes
1
reply
1.3k
views
customProDB: "complex" SNV scenarios handling
customprodb
updated 7.2 years ago by
xiaojing.wang
▴ 50 • written 7.2 years ago by
iranmdl15
• 0
0
votes
1
reply
1.3k
views
Error with PrepareAnnotationRefseq: "tablenametotrack2: UCSC table "refGene" is not supported"
customProDB
updated 7.3 years ago by
xiaojing.wang
▴ 50 • written 7.4 years ago by
samupatt
• 0
0
votes
1
reply
1.3k
views
aaVariation function bug (Methonine instead of Leucine)
customprodb
translation
updated 7.3 years ago by
xiaojing.wang
▴ 50 • written 7.6 years ago by
georges.bedran
• 0
0
votes
3
replies
2.2k
views
calculateRPKM error in customProDB
software error
customprodb
updated 3.9 years ago by
Anne
• 0 • written 8.3 years ago by
javamng
▴ 10
0
votes
0
replies
1.2k
views
Annotation package generation error for customprodb for hg38
customprodb
7.8 years ago
arunima2
• 0
1
vote
1
reply
1.8k
views
error with calculateRPKM in customProDB
customProDB
software error
updated 3.9 years ago by
Anne
• 0 • written 8.3 years ago by
javamng
▴ 10
0
votes
1
reply
1.3k
views
customProDB, OutputVarproseq function update (snvproseq)
customprodb
updated 8.9 years ago by
xiaojing.wang
▴ 50 • written 8.9 years ago by
georges.bedran
• 0
0
votes
0
replies
1.4k
views
PrepareAnnotationRefseq2 function error!
PGA
customprodb
9.2 years ago
yeh234
• 0
0
votes
1
reply
1.4k
views
CustomproDB JunctionType function
customprodb
updated 9.4 years ago by
xiaojing.wang
▴ 50 • written 9.4 years ago by
georges.bedran
• 0
0
votes
1
reply
1.4k
views
Pull request for customProDB package
customProDB
featurerequest
updated 9.5 years ago by
Dan Tenenbaum
★ 8.2k • written 9.5 years ago by
matt.chambers42
▴ 10
2
votes
4
replies
2.4k
views
customProDB: error aberrant fasta from indels
indel
customprodb
fasta
variantannotation
updated 10.3 years ago by
xiaojing.wang
▴ 50 • written 10.3 years ago by
kristenbeck527
• 0
2
votes
2
replies
2.1k
views
customProDB: issues getting dbSNP data for human (hg19)
customprodb
dbsnp
refseq
varianttools
updated 10.3 years ago by
xiaojing.wang
▴ 50 • written 10.3 years ago by
kristenbeck527
• 0
2
votes
4
replies
2.2k
views
customProDB: issues getting dbSNP data for non-model organism
ensembl
macaque
dbsnp
customprodb
updated 10.3 years ago by
xiaojing.wang
▴ 50 • written 10.3 years ago by
kristenbeck527
• 0
21 results • Page
1 of 1
Recent ...
Replies
Comment: VariantAnnotation does escape = within header string quotes
by
Daniel Cameron
▴ 40
I'm just stripping the entire line as a workaround using `meta(header(vcf))$DRAGENCommandLine = NULL`. Not ideal but at least subsequent pa…
Comment: Setting up a DESeq2 Design with Paired Data
by
Alexander
• 0
Hi Kevin, Firstly, thank you so much for not only a very prompt response, but one that is incredibly insightful and helps me learn DESeq2 …
Comment: featureCounts -L: high unassigned:mapq fraction
by
eja.gssssssse.r.m
• 0
If you re looking to enjoy a fun mobile experience, the 3 patti vegas game offers a seamless way to play classic card games on your phone. …
Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
by
Kevin Blighe
★ 4.0k
Hello Matthew, Thanks for the detailed description-this sounds like a classic challenge in sncRNA analysis, where piRNAs (and other tsRN…
Answer: VariantAnnotation does escape = within header string quotes
by
Kevin Blighe
★ 4.0k
Hi, Thanks for the minimal reproduction - this is very clear and confirms a bug in `VariantAnnotation::writeVcf()`. The issue is that th…
Votes
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
Answer: Suppress warning in RHDF5 write
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shepherl
4.2k
Scholar
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James W. MacDonald
68k
Popular Question
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Daniel Cameron
▴ 40
Popular Question
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Peter Hickey
▴ 760
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edward.esiribloom
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