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customprodb
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449
views
customProDB easyrun error in generating a custom protein database: Error in keepSeqlevels(anno, seqlevels(galn), pruning.mode = "coarse")
customProDB
11 months ago
Esraa
• 0
0
votes
1
reply
481
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 12 months ago by
James W. MacDonald
65k • written 12 months ago by
Esraa
• 0
0
votes
0
replies
288
views
customProDB: error aberrant fasta from SNV
customProDB
15 months ago
finoa.li
• 0
0
votes
0
replies
456
views
CustomProDB: specify a snp dataset to be used for the SNP annotation
customProDB
21 months ago
04.marshal-decibel
• 0
0
votes
0
replies
795
views
How to get the chrominfo from ENSEMBL? (biomaRt and customProDB)
biomaRt
customProDB
22 months ago
04.marshal-decibel
• 0
0
votes
3
replies
1.7k
views
calculateRPKM error in customProDB
software error
customprodb
updated 2.4 years ago by
Anne
• 0 • written 6.8 years ago by
javamng
▴ 10
1
vote
1
reply
1.4k
views
error with calculateRPKM in customProDB
customProDB
software error
updated 2.4 years ago by
Anne
• 0 • written 6.8 years ago by
javamng
▴ 10
0
votes
1
reply
756
views
customProDB: function PrepareAnnotationEnsembl() not working (biomart issue?)
customProDB
Ensembl connection
biomart
4.5 years ago
laura.fancello
• 0
0
votes
1
reply
792
views
CustomProDB InputVcf() - Issue getting the GRanges INDEL object from VCF file
vcf
snv
gatk
customprodb
inputvcf
4.8 years ago
Elena.M
• 0
3
votes
8
replies
3.1k
views
Create protein sequences including variants from a VCF file
VariantAnnotation
customProDB
5.2 years ago
daniel.magnus.bader
▴ 40
0
votes
1
reply
932
views
customProDB: "complex" SNV scenarios handling
customprodb
updated 5.7 years ago by
xiaojing.wang
▴ 50 • written 5.7 years ago by
iranmdl15
• 0
0
votes
1
reply
915
views
Error with PrepareAnnotationRefseq: "tablenametotrack2: UCSC table "refGene" is not supported"
customProDB
updated 5.8 years ago by
xiaojing.wang
▴ 50 • written 5.9 years ago by
samupatt
• 0
0
votes
1
reply
943
views
aaVariation function bug (Methonine instead of Leucine)
customprodb
translation
updated 5.8 years ago by
xiaojing.wang
▴ 50 • written 6.1 years ago by
georges.bedran
• 0
0
votes
0
replies
918
views
Annotation package generation error for customprodb for hg38
customprodb
6.2 years ago
arunima2
• 0
0
votes
1
reply
1.1k
views
customProDB, OutputVarproseq function update (snvproseq)
customprodb
updated 7.4 years ago by
xiaojing.wang
▴ 50 • written 7.4 years ago by
georges.bedran
• 0
0
votes
0
replies
1.1k
views
PrepareAnnotationRefseq2 function error!
PGA
customprodb
7.7 years ago
yeh234
• 0
0
votes
1
reply
1.1k
views
CustomproDB JunctionType function
customprodb
updated 7.9 years ago by
xiaojing.wang
▴ 50 • written 7.9 years ago by
georges.bedran
• 0
0
votes
1
reply
1.1k
views
Pull request for customProDB package
customProDB
featurerequest
updated 8.0 years ago by
Dan Tenenbaum
★ 8.2k • written 8.0 years ago by
matt.chambers42
▴ 10
2
votes
4
replies
1.8k
views
customProDB: error aberrant fasta from indels
indel
customprodb
fasta
variantannotation
updated 8.8 years ago by
xiaojing.wang
▴ 50 • written 8.8 years ago by
kristenbeck527
• 0
2
votes
2
replies
1.7k
views
customProDB: issues getting dbSNP data for human (hg19)
customprodb
dbsnp
refseq
varianttools
updated 8.8 years ago by
xiaojing.wang
▴ 50 • written 8.8 years ago by
kristenbeck527
• 0
2
votes
4
replies
1.7k
views
customProDB: issues getting dbSNP data for non-model organism
ensembl
macaque
dbsnp
customprodb
updated 8.8 years ago by
xiaojing.wang
▴ 50 • written 8.8 years ago by
kristenbeck527
• 0
21 results • Page
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Recent ...
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Comment: More regions in union when increasing DBA$config$mergeOverlap
by
Ian D.
▴ 70
Nudging my question. I could do with confirmation before proceeding with my current projects. Thank you.
Comment: Extremely small p-values using Limma for proteomic data
by
Robert Castelo
★ 3.3k
From the point of view of visualization, I find handy the fact that raw p-values give more resolution than adjusted ones, which allows one …
Comment: deseq2 results
by
ATpoint
★ 4.1k
> the results are not satisfactory to me Well, what is your question? The DESeq2 vignette covers how to do analysis, and some diagnostics…
Comment: Extremely small p-values using Limma for proteomic data
by
ATpoint
★ 4.1k
It's not an implementation problem I am discussing (it's trivial obviously) -- more that for most purposes the y-axis metric should be the …
Comment: Extremely small p-values using Limma for proteomic data
by
Robert Castelo
★ 3.3k
For visualization purposes you can draw an horizontal line at the p-value cutoff that meets the experiment-wide FDR cutoff. For instance, i…
Votes
Answer: minfi latest update for EPIC V2 chip
A: Error in DESeqDataSet : some values in assay are not integers
Answer: Cannot connect to ExperimentHub server
Answer: confused with tximport counts abundance using salmon input
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
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